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A Web Tool for Generating High Quality Machine-readable Biological Pathways
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Published on: February 8, 2017

Linked data and provenance in biological data webs.

Jun Zhao1, Alistair Miles, Graham Klyne

  • 1Image Bioinformatics Research Group, Department of Zoology, University of Oxford, The Tinbergen Building, South Parks Road, Oxford, OX1 3PS, UK. jun.zhao@zoo.ox.ac.uk

Briefings in Bioinformatics
|December 9, 2008
PubMed
Summary
This summary is machine-generated.

This study introduces methods for tracking data origins in functional genomics. Provenance information ensures the reliability and trustworthiness of linked life science data on the Web.

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Area of Science:

  • Bioinformatics
  • Computational Biology
  • Data Science

Background:

  • The Web facilitates publishing and linking diverse life science data.
  • Decentralized data updates necessitate robust provenance for data reliability.
  • Functional genomics data integration presents challenges in maintaining data integrity.

Purpose of the Study:

  • To present design patterns for representing and querying provenance information.
  • To address the need for trustworthy and reliable linked data in functional genomics.
  • To support data currency, integrity, and historical querying of linked genomic datasets.

Main Methods:

  • Utilizing named Resource Description Framework (RDF) graphs for provenance assertions.
  • Applying different levels of granularity in RDF graphs to represent provenance.
  • Developing query mechanisms for provenance information on linked data.

Main Results:

  • Demonstrated the sufficiency of RDF graphs for provenance representation.
  • Showcased how provenance assertions support data currency and integrity.
  • Validated the approach for enabling evidential support and historical data queries.

Conclusions:

  • The proposed design patterns effectively manage provenance for linked functional genomics data.
  • RDF graphs provide a flexible framework for detailed provenance tracking.
  • This approach enhances the trustworthiness of integrated life science data on the Web.