PayDIBI: Pay-as-you-go data integration for bioinformatics

B. Wanders

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Abstract

Background: Scientific research in bio-informatics is often data-driven and supported by biolog- ical databases. In a growing number of research projects, researchers like to ask questions that require the combination of information from more than one database. Most bio-informatics papers do not detail the integration of different databases. As roughly 30% of all tasks in workflows are data transformation tasks, database integration is an important issue. Integrating multiple data sources can be difficult. As data sources are created, many design decisions are made by their creators. Methods: Our research is guided by two use cases: homologues, the representation and integration of groupings; metabolomics integration, with a focus on the TCA cycle. Results: We propose to approach the time consuming problem of integrating multiple biological databases through the principles of ‘pay-as-you-go’ and ‘good-is-good-enough’. By assisting the user in defining a knowledge base of data mapping rules, trust information and other evidence we allow the user to focus on the work, and put in as little effort as is necessary for the integration. Through user feedback on query results and trust assessments, the integration can be improved upon over time. Conclusions: We conclude that this direction of research is worthy of further exploration.
Original languageUndefined
Title of host publicationBeNeLux Bioinformatics Conference 2012
Place of PublicationNijmegen
PublisherCentre for Molecular and Biomolecular Informatics
Pages53
ISBN (Print)not assigned
Publication statusPublished - 10 Dec 2012

Publication series

Name
PublisherCentre for Molecular and Biomolecular Informatics

Keywords

  • EWI-22914
  • METIS-296228
  • IR-84256

Cite this

Wanders, B. (2012). PayDIBI: Pay-as-you-go data integration for bioinformatics. In BeNeLux Bioinformatics Conference 2012 (pp. 53). Nijmegen: Centre for Molecular and Biomolecular Informatics.