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A search for H/ACA snoRNAs in yeast using MFE secondary structure prediction
Mid Sweden University, Faculty of Science, Technology and Media, Department of Information Technology and Media.
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2003 (English)In: Bioinformatics, ISSN 1367-4803, Vol. 19, no 7, 865-873 p.Article in journal (Refereed) Published
Abstract [en]

We develop an algorithm to screen the yeast genome for novel H/ACA snoRNAs. To achieve this, we introduce some new methods for facilitating the search for noncoding RNAs in genomic sequences which are based on properties of predicted minimum free-energy (MFE) secondary structures. The algorithm has been implemented and can be generalized to enable screening of other eukaryote genomes. We find that use of primary sequence alone is insufficient for identifying novel H/ACA snoRNAs. Only the use of secondary structure filters reduces the number of candidates to a manageable size. From genomic context, we identify three strong H/ACA snoRNA candidates. These together with a further 47 candidates obtained by our analysis are being experimentally screened.

Place, publisher, year, edition, pages
2003. Vol. 19, no 7, 865-873 p.
Keyword [en]
bioinformatics
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Biological Sciences
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URN: urn:nbn:se:miun:diva-1888DOI: 10.1093/bioinformatics/btg080ISI: 000182634800011Scopus ID: 2-s2.0-003762064Local ID: 700OAI: oai:DiVA.org:miun-1888DiVA: diva2:26920
Available from: 2008-09-30 Created: 2008-09-30 Last updated: 2016-10-24Bibliographically approved

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CiteExportLink to record
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