A new approach to gene prediction using the self-organizing map

S. Mahony, T. J. Smith, J. O. McInerney, A. Golden

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

In this poster we present a gene prediction approach based on the self-organizing map that has the ability to automatically identify all the major patterns of content variation within a genome. The genome may then be scanned for regions displaying the same properties as one of these automatically identified models. Even using a relatively simple coding measure (codon usage), this method can predict the location of protein-coding sequences with a reasonably high accuracy. We also show other advantages of the approach, such as the ability to indicate genes that contain frame-shifts. We believe that this method has the potential to become a useful addition to the genome annotation process.

Original languageEnglish (US)
Title of host publicationProceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003
PublisherInstitute of Electrical and Electronics Engineers Inc.
Pages444-445
Number of pages2
ISBN (Print)0769520006, 9780769520001
DOIs
StatePublished - 2003
Externally publishedYes
Event2nd International IEEE Computer Society Computational Systems Bioinformatics Conference, CSB 2003 - Stanford, United States
Duration: Aug 11 2003Aug 14 2003

Other

Other2nd International IEEE Computer Society Computational Systems Bioinformatics Conference, CSB 2003
CountryUnited States
CityStanford
Period8/11/038/14/03

Fingerprint

Self organizing maps
Genes
Proteins

ASJC Scopus subject areas

  • Electrical and Electronic Engineering
  • Computer Science Applications

Cite this

Mahony, S., Smith, T. J., McInerney, J. O., & Golden, A. (2003). A new approach to gene prediction using the self-organizing map. In Proceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003 (pp. 444-445). [1227365] Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/CSB.2003.1227365

A new approach to gene prediction using the self-organizing map. / Mahony, S.; Smith, T. J.; McInerney, J. O.; Golden, A.

Proceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003. Institute of Electrical and Electronics Engineers Inc., 2003. p. 444-445 1227365.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Mahony, S, Smith, TJ, McInerney, JO & Golden, A 2003, A new approach to gene prediction using the self-organizing map. in Proceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003., 1227365, Institute of Electrical and Electronics Engineers Inc., pp. 444-445, 2nd International IEEE Computer Society Computational Systems Bioinformatics Conference, CSB 2003, Stanford, United States, 8/11/03. https://doi.org/10.1109/CSB.2003.1227365
Mahony S, Smith TJ, McInerney JO, Golden A. A new approach to gene prediction using the self-organizing map. In Proceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003. Institute of Electrical and Electronics Engineers Inc. 2003. p. 444-445. 1227365 https://doi.org/10.1109/CSB.2003.1227365
Mahony, S. ; Smith, T. J. ; McInerney, J. O. ; Golden, A. / A new approach to gene prediction using the self-organizing map. Proceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003. Institute of Electrical and Electronics Engineers Inc., 2003. pp. 444-445
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