Conference Paper

Ontology for genome comparison and genomic rearrangements

  1. Keith Flanagan1,
  2. Robert Stevens2,
  3. Matthew Pocock1,
  4. Pete Lee1,
  5. Anil Wipat1,*

Article first published online: 6 JAN 2005

DOI: 10.1002/cfg.436

Issue

Comparative and Functional Genomics

Comparative and Functional Genomics

Volume 5, Issue 6-7, pages 537–544, August - October 2004

Additional Information

How to Cite

Flanagan, K., Stevens, R., Pocock, M., Lee, P. and Wipat, A. (2004), Ontology for genome comparison and genomic rearrangements. Comp Funct Genom, 5: 537–544. doi: 10.1002/cfg.436

Author Information

  1. 1

    School of Computing Science, University of Newcastle upon Tyne, UK

  2. 2

    Department of Computing Science, University of Manchester, UK

*School of Computing Science, Claremont Tower, Claremont Road, Newcastle upon Tyne NE1 7RU, UK.

Publication History

  1. Issue published online: 6 JAN 2005
  2. Article first published online: 6 JAN 2005
  3. Manuscript Accepted: 1 NOV 2004
  4. Manuscript Revised: 27 OCT 2004
  5. Manuscript Received: 25 OCT 2004

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Keywords:

  • comparative;
  • genome;
  • logic;
  • ontology;
  • rearrangement;
  • reasoning

Abstract

We present an ontology for describing genomes, genome comparisons, their evolution and biological function. This ontology will support the development of novel genome comparison algorithms and aid the community in discussing genomic evolution. It provides a framework for communication about comparative genomics, and a basis upon which further automated analysis can be built. The nomenclature defined by the ontology will foster clearer communication between biologists, and also standardize terms used by data publishers in the results of analysis programs. The overriding aim of this ontology is the facilitation of consistent annotation of genomes through computational methods, rather than human annotators. To this end, the ontology includes definitions that support computer analysis and automated transfer of annotations between genomes, rather than relying upon human mediation. Copyright © 2004 John Wiley & Sons, Ltd.

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