Cardioviral RNA structure logo analysis: entropy, correlations, and prediction

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	Cardioviral RNA structure logo analysis: entropy, correlations, and prediction
	Chen XZ 1,2; Cao H 1; Zhang W 3; Liu CQ*1,4,5; ch_xiaozhou@yahoo.com.cn
	2010
发表期刊	JOURNAL OF BIOLOGICAL PHYSICS
ISSN	0092-0606
卷号	36 期号:2 页码:145-159
合作性质	其它
摘要	In recent years, there has been an increased number of sequenced RNAs leading to the development of new RNA databases. Thus, predicting RNA structure from multiple alignments is an important issue to understand its function. Since RNA secondary structures are often conserved in evolution, developing methods to identify covariate sites in an alignment can be essential for discovering structural elements. Structure Logo is a technique established on the basis of entropy and mutual information measured to analyze RNA sequences from an alignment. We proposed an efficient Structure Logo approach to analyze conservations and correlations in a set of Cardioviral RNA sequences. The entropy and mutual information content were measured to examine the conservations and correlations, respectively. The conserved secondary structure motifs were predicted on the basis of the conservation and correlation analyses. Our predictive motifs were similar to the ones observed in the viral RNA structure database, and the correlations between bases also corresponded to the secondary structure in the database.
关键词	Rna Structure Logo Entropy Correlations Predictive Motif
学科领域	Biophysics
URL	查看原文
收录类别	SCI
资助项目	This work was partly supported by NSFC (Natural Science Foundation of China, No. 90303018, and No. 90208018).
文献类型	期刊论文
条目标识符	http://ir.kiz.ac.cn/handle/152453/5397
专题	其他
通讯作者	ch_xiaozhou@yahoo.com.cn
作者单位	1.Modern Biology Research Center, Yunnan University, Kunming 650091, China 2.School of Mathematics and Computer Science, Yunnan Nationalities University, Kunming 650031, China 3.Department of Cell Biology and Genetics, Kunming Medical College, Kunming 650031, China 4.Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China 5.Theotetical Biology Research Center, Peking University, Beijing 100871, China
推荐引用方式 GB/T 7714	Chen XZ,Cao H,Zhang W,et al. Cardioviral RNA structure logo analysis: entropy, correlations, and prediction[J]. JOURNAL OF BIOLOGICAL PHYSICS,2010,36(2):145-159.
APA	Chen XZ,Cao H,Zhang W,Liu CQ*,&ch_xiaozhou@yahoo.com.cn.(2010).Cardioviral RNA structure logo analysis: entropy, correlations, and prediction.JOURNAL OF BIOLOGICAL PHYSICS,36(2),145-159.
MLA	Chen XZ,et al."Cardioviral RNA structure logo analysis: entropy, correlations, and prediction".JOURNAL OF BIOLOGICAL PHYSICS 36.2(2010):145-159.

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