A complexity-based method to compare RNA secondary structures and its application

Journal of Biomolecular Structure & Dynamics
Shengli Zhang, Tianming Wang

Abstract

With the rapid emergence of RNA structure databases recently, efficient methods for RNA structure comparison are in demand for function prediction and evolutionary analysis. In this paper, we transform the complex secondary structure into the linear characteristic sequence which contains the information on primary sequence and the base pairing, and introduce the linear characteristic sequences into similarity analysis and phylogenetic analysis by using conditional LZ complexity. The results obtained from the two sets of real data have shown that our proposed method is effectual and feasible.

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Citations

Jun 24, 2011·Journal of Biomolecular Structure & Dynamics·Ra'ed M Al-KhatibRosni Abdullah
Feb 8, 2011·Journal of Biomolecular Structure & Dynamics·Tung-Ti ChangCalvin Yu-Chian Chen
Feb 8, 2011·Journal of Biomolecular Structure & Dynamics·Xiaoqing LiuZerong He
Jun 15, 2012·Journal of Biomolecular Structure & Dynamics·Parviz SoleimaniAli Movafeghi
Jul 21, 2012·Journal of Biomolecular Structure & Dynamics·Jae-Kwan Kim, Deok-Soo Kim
Sep 10, 2011·Bioinformatics·Yuan Li, Shaojie Zhang
Nov 3, 2010·Journal of Theoretical Biology·Yujuan HuangTianming Wang
Jun 24, 2011·Journal of Biomolecular Structure & Dynamics·Joydeep Chakraborty, Tapan K Dutta
Dec 15, 2010·Journal of Biomolecular Structure & Dynamics·Guisong Chang, Tianming Wang
Dec 15, 2010·Journal of Biomolecular Structure & Dynamics·Yusen Zhang, Wei Chen

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