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Modeling and identification of alternative folding in regulatory RNAs using context-sensitive HMMS

Yoon, Byung-Jun and Vaidyanathan, P. P. (2006) Modeling and identification of alternative folding in regulatory RNAs using context-sensitive HMMS. In: IEEE International Workshop on Genomic Signal Processing and Statistics, 2006 (GENSIPS '06), College Station, TX, 28-30 May 2006. IEEE , Piscataway, NJ, pp. 21-22. ISBN 1424403855.

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Recent research on gene regulation has revealed that many noncoding RNAs (ncRNAs) are actively involved in controlling various gene-regulatory networks. For such ncRNAs, their secondary structures play crucial roles in carrying out their functions. Interestingly enough, many regulatory RNAs can choose from two alternative structures based on external factors, which enables the RNAs to regulate the expression of certain genes in an environment-dependent manner. The existence of alternative structures give rise to complex correlations in the primary sequence of the RNA. In this paper, we propose an efficient method for modeling alternative secondary structures in regulatory RNAs. The proposed method can be applied to the prediction of novel regulatory RNAs in genome sequences.

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Vaidyanathan, P. P.0000-0003-3003-7042
Additional Information:© 2006 IEEE. Reprinted with Permission. Publication Date: May 2006. Posted online: 2007-04-30. Work supported in parts by the NSF grant CCF-0428326 and the Microsoft Research Graduate Fellowship.
Record Number:CaltechAUTHORS:YOOgensips06
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ID Code:9711
Deposited On:10 Mar 2008
Last Modified:08 Nov 2021 21:01

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