Journal article
The in silico prediction of promoters in bacterial genomes
Genome Informatics Workshop. Proceedings, Vol.19, pp.178-189
2007
Abstract
In silico approaches to the identification of bacterial promoters are hampered by poor conservation of their characteristic binding sites. This suggests that the usual position weight matrix models of bacterial promoters are incomplete. A number of methods have been used to overcome this inadequacy, one of which is to incorporate structural properties of DNA. In this paper we describe an extension of the promoter description to include SIDD (stress induced duplex destabilization), DNA curvature and stacking energy. Although we report the best result to date for a realistic promoter prediction task, surprisingly, DNA structural properties did not contribute significantly to this result. We also demonstrate for the first time, that sigma-54 promoters have a stronger association with SIDD than do other promoter types.
Details
- Title
- The in silico prediction of promoters in bacterial genomes
- Authors
- M Towsey (Author) - Queensland University of TechnologyJ M Hogan (Author) - Queensland University of TechnologyS Mathews (Author) - Queensland University of TechnologyPeter Timms (Author) - Queensland University of Technology
- Publication details
- Genome Informatics Workshop. Proceedings, Vol.19, pp.178-189
- Publisher
- Universal Academy Press, Inc.
- Date published
- 2007
- DOI
- 10.1142/9781860949852_0016
- ISSN
- 0919-9454
- Copyright note
- Copyright © 2007 The Author. Reproduced here with permission of the copyright holder.
- Organisation Unit
- University of the Sunshine Coast, Queensland; Centre for Bioinnovation
- Language
- English
- Record Identifier
- 99449789502621
- Output Type
- Journal article
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