Skip to main content
SpringerLink
Log in
Book cover

Semantic Web

Revolutionizing Knowledge Discovery in the Life Sciences

  • Book
  • © 2007

Overview

Editors:
  1. Christopher J. O. Baker

    1. Knowledge Discovery Department, Institute for Infocomm Research, Singapore

    View editor publications

    You can also search for this editor in PubMed   Google Scholar

  2. Kei-Hoi Cheung

    1. Center for Medical Informatics, Yale University School of Medicine, New Haven, USA

    View editor publications

    You can also search for this editor in PubMed   Google Scholar

  • Covers topics ranging from database, ontology, visualization, to semantic web services and workflows

  • Features the intersection of Semantic Web and Life Sciences

  • Gives examples/scenarios illustrating different Semantic Web applications in the life science domain

  • Discusses the limitations and obstacles that need to be overcome for Semantic Web to better meet the current and future needs of life science researchers

  • Includes supplementary material: sn.pub/extras

This is a preview of subscription content, log in via an institution to check access.

Access this book

Log in via an institution
eBook USD 129.00
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book USD 169.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book USD 169.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Other ways to access

Licence this eBook for your library

Institutional subscriptions

Table of contents (19 chapters)

  1. Front Matter

    Pages i-xxi
    Download chapter PDF

  2. Introduction

    1. Introduction

      Pages 1-8

  3. Database and Literature Integration

    1. Front Matter

      Pages 9-9
      Download chapter PDF

    2. Semantic Web Approach to Database Integration in the Life Sciences

      • Kei-Hoi Cheung, Andrew K. Smith, Kevin Y. L. Yip, Christopher J. O. Baker, Mark B. Gerstein
      Pages 11-30

    3. Querying Semantic Web Contents

      • Loïc Royer, Benedikt Linse, Thomas Wächter, Tim Furch, François Bry, Michael Schroeder
      Pages 31-52

    4. Knowledge Acquisition from the Biomedical Literature

      • Lynette Hirschman, William S. Hayes, Alfonso Valencia
      Pages 53-81

  4. Ontologies in the Life Sciences

    1. Front Matter

      Pages 83-83
      Download chapter PDF

    2. Biological Ontologies

      • Patrick Lambrix, He Tan, Vaida Jakoniene, Lena Strömbäck
      Pages 85-99

    3. Clinical Ontologies for Discovery Applications

      • Yves A. Lussier, Olivier Bodenreider
      Pages 101-119

    4. Ontology Engineering for Biological Applications

      • Larisa N. Soldatova, Ross D. King
      Pages 121-137

    5. The Evaluation of Ontologies

      • Leo Obrst, Werner Ceusters, Inderjeet Mani, Steve Ray, Barry Smith
      Pages 139-158

    6. OWL for the Novice: A Logical Perspective

      • Jeff Z. Pan
      Pages 159-182

  5. Ontology Visualization

    1. Front Matter

      Pages 183-183
      Download chapter PDF

    2. Techniques for Ontology Visualization

      • Xiaoshu Wang, Jonas S. Almeida
      Pages 185-203

    3. On Visualization of OWL Ontologies

      • Serguei Krivov, Ferdinando Villa, Richard Williams, Xindong Wu
      Pages 205-221

  6. Ontologies in Action

    1. Front Matter

      Pages 223-223
      Download chapter PDF

    2. Applying OWL Reasoning to Genomic Data

      • Katy Wolstencroft, Robert Stevens, Volker Haarslev
      Pages 225-248

    3. Can Semantic Web Technologies Enable Translational Medicine?

      • Vipul Kashyap, Tonya Hongsermeier
      Pages 249-279

    4. Ontology Design for Biomedical Text Mining

      • René Witte, Thomas Kappler, Christopher J. O. Baker
      Pages 281-313

  7. Using Distributed Knowledge

    1. Front Matter

      Pages 315-315
      Download chapter PDF
Back to top

Keywords

About this book

The rapid growth of the Web has led to the proliferation of information sources and content accessible via the Internet. While improvements in hardware capabilities continue to help the speed and the flow of information across networked computers, there remains a major problem for the human user to keep up with the rapid expansion of the Web information space. Although there is plenty of room for computers to help humans to discover, navigate, and integrate information in this vast information space, the way the information is currently represented and structured through the Web is not easily readable to computers. To address this issue, the Semantic Web has emerged. It envisions a new information infrastructure that enables computers to better address the information needs of human users. To realize the Semantic Web vision, a number of standard technologies have been developed. These include the Uniform Resource Identifiers (URI) for identifying objects in the Web space as well as Resource Description Framework (RDF) and Web Ontology Language (OWL) for encoding knowledge in the form of standard machine-readable ontologies. The goal is to migrate from the syntactic Web of documents to the semantic Web of ontologies. The leading organization for facilitating, developing, and promoting these Web-based standards is the World Wide Web Consortium (W3C) (http://www. w3. org).

Editors and Affiliations

  • Knowledge Discovery Department, Institute for Infocomm Research, Singapore

    Christopher J. O. Baker

  • Center for Medical Informatics, Yale University School of Medicine, New Haven, USA

    Kei-Hoi Cheung

About the editors

Christopher Baker is a Principle Investigator at the Knowledge Discovery Department of the Institute for Infocomm Research (I2R), a member of the Agency for Science, Technology and Research (A*STAR) in Singapore. Dr Baker was formerly Bioinformatics Project Manager of the Génome Québec funded project, ’Ontologies, the semantic web and intelligent systems for genomics’ where he coordinated the application of knowledge management technologies to fungal genomic data sets. Prior to this he was Group Leader In-silico Discovery at Ecopia BioSciences Inc. where he masterminded key portions of the DecipherIT™ bioinformatics software suite and managed the genomic annotation team. Dr Baker received post doctoral training at Iogen Corporation and the University of Toronto after completing his Ph. D. studies in Environmental Microbiology and Enzymology at the University of Wales, Cardiff, UK.

Dr. Cheung is currently an Associate Professor at the Center for Medical Informatics, Yale University School of Medicine. Dr. Cheung is a bioinformatician with a Ph.D. in Computer Science. He has established a broad base of collaboration with life scientists, computational biologists, and computer scientists. Dr. Cheung has published extensively in the field of bioinformatics. He is one of the core faculty members in the Yale Ph.D. Program in Computational Biology and Bioinformatics. In addition, he is a Principal Investigator of two research grants (one was awarded by the National Institutes of Health and the other was awarded by the National Science Foundation). Dr. Cheung’s research interests include biological database and tool integration. Recently, Dr. Cheung has embarked on the research and development of Semantic Web in the bioscience domain.

Bibliographic Information

Publish with us

Policies and ethics

Back to top

Search

Navigation