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A study in integrating multiple biological data sources
Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems. Linköping University, The Institute of Technology.
2005 (English)Licentiate thesis, monograph (Other academic)
Abstract [en]

Life scientists often have to retrieve data from multiple biological data sources to solve their research problems. Although many data sources are available, they vary in content, data format, and access methods, which often vastly complicates the data retrieval process. The user must decide which data sources to access and in which order, how to retrieve the data and how to combine the results - in short, the task of retrieving data requires a great deal of effort and expertise on the part of the user.

Information integration systems aim to alleviate these problems by providing a uniform (or even integrated) interface to biological data sources. The information integration systems currently available for biological data sources use traditional integration approaches. However, biological data and data sources have unique properties which introduce new challenges, requiring development of new solutions and approaches.

This thesis is part of the BioTrifu project, which explores approaches to integrating multiple biological data sources. First, the thesis describes properties of biological data sources and existing systems that enable integrated access to them. Based on the study, requirements for systems integrating biological data sources are formulated and the challenges involved in developing such systems are discussed. Then, the thesis presents a query language and a high-level architecture for the BioTrifu system that meet these requirements. An approach to generating a query plan in the presence of alternative data sources and ways to integrate the data is then developed. Finally, the design and implementation of a prototype for the BioTrifu system are presented.

Place, publisher, year, edition, pages
Linköping: Linköpings universitet , 2005. , 126 p.
Series
Linköping Studies in Science and Technology. Thesis, ISSN 0280-7971 ; 1149
Keyword [en]
information integration, databases, bioinformatics, biological data, BioTrifu
National Category
Computer Science
Identifiers
URN: urn:nbn:se:liu:diva-30603Local ID: 16194ISBN: 91-85297-40-2 (print)OAI: oai:DiVA.org:liu-30603DiVA: diva2:251426
Presentation
2005-03-17, Visionen, Hus B, Linköpings Universitet, Linköping, 13:15 (Swedish)
Supervisors
Available from: 2009-10-09 Created: 2009-10-09 Last updated: 2017-08-15

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CiteExportLink to record
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Citation style
  • apa
  • harvard1
  • ieee
  • modern-language-association-8th-edition
  • vancouver
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  • Other style
More styles
Language
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Other locale
More languages
Output format
  • html
  • text
  • asciidoc
  • rtf