RNA structural motif recognition based on least-squares distance

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Published on: July 14, 2015

Ying Shen¹, Hau-San Wong, Shaohong Zhang

¹School of Software Engineering, Tongji University, Shanghai 200092, China.

RNA (New York, N.Y.)

|July 27, 2013

Abstract:

RNA structural motifs are recurrent structural elements occurring in RNA molecules. RNA structural motif recognition aims to find RNA substructures that are similar to a query motif, and it is important for RNA structure analysis and RNA function prediction. In view of this, we propose a new method known as RNA Structural Motif Recognition based on Least-Squares distance (LS-RSMR) to effectively recognize RNA structural motifs. A test set consisting of five types of RNA structural motifs occurring in Escherichia coli ribosomal RNA is compiled by us. Experiments are conducted for recognizing these five types of motifs. The experimental results fully reveal the superiority of the proposed LS-RSMR compared with four other state-of-the-art methods.

Keywords:

RNA motif recognition RNA structural motif

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