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Data Integration in the Life Sciences

5th International Workshop, DILS 2008, Evry, France, June 25-27, 2008, Proceedings

  • Conference proceedings
  • © 2008

Overview

Editors:
  1. Amos Bairoch
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  2. Sarah Cohen-Boulakia
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  3. Christine Froidevaux
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Part of the book series: Lecture Notes in Computer Science (LNCS, volume 5109)

Part of the book sub series: Lecture Notes in Bioinformatics (LNBI)

Included in the following conference series:

Conference proceedings info: DILS 2008.

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Table of contents (22 papers)

  1. Front Matter

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  3. Semantic Web for the Life Sciences

    1. Analyzing the Evolution of Life Science Ontologies and Mappings

      • Michael Hartung, Toralf Kirsten, Erhard Rahm
      Pages 11-27

    2. Ontology Design Principles and Normalization Techniques in the Web

      • Xiaoshu Wang, Jonas S. Almeida, Arlindo L. Oliveira
      Pages 28-43

    3. Exploiting Ontology Structure and Patterns of Annotation to Mine Significant Associations between Pairs of Controlled Vocabulary Terms

      • Woei-Jyh Lee, Louiqa Raschid, Hassan Sayyadi, Padmini Srinivasan
      Pages 44-60

  4. Designing and Evaluating Architectures to Integrate Biological Data

    1. Automatic Methods for Integrating Biomedical Data Sources in a Mediator-Based System

      • Fleur Mougin, Anita Burgun, Olivier Bodenreider, Julie Chabalier, Olivier Loréal, Pierre Le Beux
      Pages 61-76

    2. VisGenome and Ensembl: Usability of Integrated Genome Maps

      • Joanna Jakubowska, Ela Hunt, John McClure, Matthew Chalmers, Martin McBride, Anna F. Dominiczak
      Pages 77-91

    3. An Entity Resolution Framework for Deduplicating Proteins

      • Lucas Lochovsky, Thodoros Topaloglou
      Pages 92-107

  5. New Architectures and Experience on Using Systems

    1. Semantic Representation and Querying of caBIG Data Services

      • E. Patrick Shironoshita, Ray M. Bradley, Yves R. Jean-Mary, Thomas J. Taylor, Michael T. Ryan, Mansur R. Kabuka
      Pages 108-115

    2. SisGen: A CORBA–Based Data Management Program for DNA Sequencing Projects

      • Georgios J. Pappas Jr., Robson P. Miranda, Natália F. Martins, Roberto C. Togawa, Marcos M. C. Costa
      Pages 116-123

    3. Bgee: Integrating and Comparing Heterogeneous Transcriptome Data Among Species

      • Frederic Bastian, Gilles Parmentier, Julien Roux, Sebastien Moretti, Vincent Laudet, Marc Robinson-Rechavi
      Pages 124-131

    4. ENFIN - An Integrative Structure for Systems Biology

      • Florian Reisinger, Manuel Corpas, John Hancock, Henning Hermjakob, Ewan Birney, Pascal Kahlem
      Pages 132-143

  6. Systems Using Technologies from the Semantic Web for the Life Sciences

    1. A System for Ontology-Based Annotation of Biomedical Data

      • Clement Jonquet, Mark A. Musen, Nigam Shah
      Pages 144-152

    2. Bio2RDF : A Semantic Web Atlas of Post Genomic Knowledge about Human and Mouse

      • François Belleau, Nicole Tourigny, Benjamin Good, Jean Morissette
      Pages 153-160

    3. OMIE: Ontology Mapping within an Interactive and Extensible Environment

      • Amel Bouzeghoub, Abdeltif Elbyed, Fariza Tahi
      Pages 161-168

    4. Chemical Knowledge for the Semantic Web

      • Mykola Konyk, Alexander De Leon, Michel Dumontier
      Pages 169-176
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  1. Data Integration in the Life Sciences

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About this book

For several years now, there has been an exponential growth of the amount of life science data (e. g. , sequenced complete genomes, 3D structures, DNA chips, mass spectroscopy data), most of which are generated by high-throughput - periments. This exponentialcorpusof data is storedand made availablethrough a large number of databases and resources over the Web, but unfortunately still with a high degreeof semantic heterogeneity and varying levels of quality. These data must be combined together and processed by bioinformatics tools deployed on powerful and e?cient platforms to permit the uncovering of patterns, s- ilarities and in general to help in the process of discovery. Analyzing complex, voluminous, and heterogeneous data and guiding the analysis of data are thus of paramount importance and necessitate the involvement of data integration techniques. DILS 2008 was the ?fth in a workshop series that aims at fostering disc- sion, exchange, and innovation in research and development in the area of data integration for the life sciences. Each previous DILS workshop attracted around 100 researchers from all over the world and saw an increase of submitted - pers over the preceding one. This year was not an exception and the number of submitted papers increased to 54. The ProgramCommittee selected 18 of them. The selected papers cover a wide spectrum of theoretical and practical issues including data annotation, Semantic Web for the life sciences, and data mining on integrated biological data.

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