Data Integration in the Life Sciences

by Bairoch, Amos; Cohen-boulakia, Sarah; Froidevaux, Christine

• ISBN13: 9783540698272
• ISBN10: 3540698272
• Format: Paperback
• Copyright: 2008-08-03
• Publisher: Springer-Verlag New York Inc

Summary

This book constitutes the refereed proceedings of the 5th International Workshop on Data Integration in the Life Sciences, DILS 2008, held in Evry, France in June 2008.The 18 revised full papers presented together with 3 keynote talks and a tutorial paper were carefully reviewed and selected from 54 submissions. The papers adress all current issues in data integration and data management from the life science point of view and are organized in topical sections on Semantic Web for the life sciences, designing and evaluating architectures to integrate biological data, new architectures and experience on using systems, systems using technologies from the Semantic Web for the life sciences, mining integrated biological data, and new features of major resources for biomolecular data.

Table of Contents

Ontologies and Data Integration in Biomedicine: Success Stories and Challenging Issues	p. 1
BioWarehouse: Relational Integration of Eleven Bioinformatics Databases and Formats	p. 5
Data Integration in the Life Sciences: Fun, Findings and Frustrations	p. 8
Analyzing the Evolution of Life Science Ontologies and Mappings	p. 11
Ontology Design Principles and Normalization Techniques in the Web	p. 28
Exploiting Ontology Structure and Patterns of Annotation to Mine Significant Associations between Pairs of Controlled Vocabulary Terms	p. 44
Automatic Methods for Integrating Biomedical Data Sources in a Mediator-Based System	p. 61
VisGenome and Ensembl: Usability of Integrated Genome Maps	p. 77
An Entity Resolution Framework for Deduplicating Proteins	p. 92
Semantic Representation and Querying of caBIG Data Services	p. 108
SisGen: A CORBA-Based Data Management Program for DNA Sequencing Projects	p. 116
Bgee: Integrating and Comparing Heterogeneous Transcriptome Data Among Species	p. 124
ENFIN - An Integrative Structure for Systems Biology	p. 132
A System for Ontology-Based Annotation of Biomedical Data	p. 144
Bio2RDF: A Semantic Web Atlas of Post Genomic Knowledge about Human and Mouse	p. 153
OMIE: Ontology Mapping within an Interactive and Extensible Environment	p. 161
Chemical Knowledge for the Semantic Web	p. 169
Combining One-Class Classification Models Based on Diverse Biological Data for Prediction of Protein-Protein Interactions	p. 177
Semi Supervised Spectral Clustering for Regulatory Module Discovery	p. 192
UniProtKB/Swiss-Prot: New and Future Developments	p. 204
EBI Proteomics Services	p. 207
Bio-ontologies Tutorial	p. 208
Author Index	p. 209
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