chen-qf-discoveryofstructuraland-2009.pdf (2.48 MB)
Discovery of structural and functional features in RNA pseudoknots
journal contribution
posted on 2009-07-01, 00:00 authored by Qingfeng Chen, Yi-Ping Phoebe ChenAn RNA pseudoknot consists of nonnested double-stranded stems connected by single-stranded loops. There is increasing recognition that RNA pseudoknots are one of the most prevalent RNA structures and fulfill a diverse set of biological roles within cells, and there is an expanding rate of studies into RNA pseudoknotted structures as well as increasing allocation of function. These not only produce valuable structural data but also facilitate an understanding of structural and functional characteristics in RNA molecules. PseudoBase is a database providing structural, functional, and sequence data related to RNA pseudoknots. To capture the features of RNA pseudoknots, we present a novel framework using quantitative association rule mining to analyze the pseudoknot data. The derived rules are classified into specified association groups regarding structure, function, and category of RNA pseudoknots. The discovered association rules assist biologists in filtering out significant knowledge of structure-function and structure-category relationships. A brief biological interpretation to the relationships is presented, and their potential correlations with each other are highlighted.
History
Journal
IEEE transactions on knowledge and data engineeringVolume
21Issue
7Pagination
974 - 984Publisher
IEEELocation
Piscataway, NJPublisher DOI
ISSN
1041-4347eISSN
1558-2191Language
engNotes
This material is presented to ensure timely dissemination of scholarly and technical work. Copyright and all rights therein are retained by authors or by other copyright holders. All persons copying this information are expected to adhere to the terms and constraints invoked by each author's copyright. In most cases, these works may not be reposted without the explicit permission of the copyright holder.Publication classification
C1 Refereed article in a scholarly journal; C Journal articleCopyright notice
2009, IEEEUsage metrics
Categories
No categories selectedKeywords
Licence
Exports
RefWorks
BibTeX
Ref. manager
Endnote
DataCite
NLM
DC