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A first step towards learning which uORFs regulate gene expression

Bryant, CH, Kemp, GJL and Cvijovic, M 2006, 'A first step towards learning which uORFs regulate gene expression' , Journal of Integrative Bioinformatics, 3 (2) , p. 31.

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Abstract

We have taken a first step towards learning which upstream Open Reading Frames (uORFs) regulate gene expression (i.e., which uORFs are functional) in the yeast Saccharomyces cerevisiae. We do this by integrating data from several resources and combining a bioinformatics tool, ORF Finder, with a machine learning technique, Inductive Logic Programming (ILP). Here, we report the challenge of using ILP as part of this integrative system, in order to automatically generate a model that identifies functional uORFs. Our method makes searching for novel functional uORFs more efficient than random sampling. An attempt has been made to predict novel functional uORFs using our method. Some preliminary evidence that our model may be biologically meaningful is presented.

Item Type: Article
Additional Information: Paper presented at the 3rd International Workshop on Integrative Bioinformatics, 2006
Themes: Subjects / Themes > Q Science > QA Mathematics > QA075 Electronic computers. Computer science
Subjects / Themes > Q Science > QH Natural history > QH301 Biology
Subjects outside of the University Themes
Schools: Colleges and Schools > College of Science & Technology
Colleges and Schools > College of Science & Technology > School of Computing, Science and Engineering
Colleges and Schools > College of Science & Technology > School of Computing, Science and Engineering > Data Mining and Pattern Recognition Research Centre
Journal or Publication Title: Journal of Integrative Bioinformatics
Publisher: Bielefeld University, Germany
Refereed: Yes
ISSN: 1613-4516
Related URLs:
Depositing User: Dr Chris H. Bryant
Date Deposited: 16 Feb 2009 14:07
Last Modified: 20 Aug 2013 15:55
URI: http://usir.salford.ac.uk/id/eprint/1755

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