The effect of central loops in miRNA:MRE duplexes on the efficiency of miRNA-mediated gene regulation.

MicroRNAs (miRNAs) guide posttranscriptional repression of mRNAs. Hundreds of miRNAs have been identified but the target identification of mammalian mRNAs is still a difficult task due to a poor understanding of the interaction between miRNAs and the miRNA recognizing element (MRE). In recent resear...

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Autores principales:	Wenbin Ye, Qing Lv, Chung-Kwun Amy Wong, Sean Hu, Chao Fu, Zhong Hua, Guoping Cai, Guoxi Li, Burton B Yang, Yaou Zhang
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2008
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/8c6348d8a48d43a3b6460cb98488eec0
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spelling	oai:doaj.org-article:8c6348d8a48d43a3b6460cb98488eec02021-11-25T06:13:12ZThe effect of central loops in miRNA:MRE duplexes on the efficiency of miRNA-mediated gene regulation.1932-620310.1371/journal.pone.0001719https://doaj.org/article/8c6348d8a48d43a3b6460cb98488eec02008-03-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/18320040/?tool=EBIhttps://doaj.org/toc/1932-6203MicroRNAs (miRNAs) guide posttranscriptional repression of mRNAs. Hundreds of miRNAs have been identified but the target identification of mammalian mRNAs is still a difficult task due to a poor understanding of the interaction between miRNAs and the miRNA recognizing element (MRE). In recent research, the importance of the 5' end of the miRNA:MRE duplex has been emphasized and the effect of the tail region addressed, but the role of the central loop has largely remained unexplored. Here we examined the effect of the loop region in miRNA:MRE duplexes and found that the location of the central loop is one of the important factors affecting the efficiency of gene regulation mediated by miRNAs. It was further determined that the addition of a loop score combining both location and size as a new criterion for predicting MREs and their cognate miRNAs significantly decreased the false positive rates and increased the specificity of MRE prediction.Wenbin YeQing LvChung-Kwun Amy WongSean HuChao FuZhong HuaGuoping CaiGuoxi LiBurton B YangYaou ZhangPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 3, Iss 3, p e1719 (2008)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Wenbin Ye Qing Lv Chung-Kwun Amy Wong Sean Hu Chao Fu Zhong Hua Guoping Cai Guoxi Li Burton B Yang Yaou Zhang The effect of central loops in miRNA:MRE duplexes on the efficiency of miRNA-mediated gene regulation.
description	MicroRNAs (miRNAs) guide posttranscriptional repression of mRNAs. Hundreds of miRNAs have been identified but the target identification of mammalian mRNAs is still a difficult task due to a poor understanding of the interaction between miRNAs and the miRNA recognizing element (MRE). In recent research, the importance of the 5' end of the miRNA:MRE duplex has been emphasized and the effect of the tail region addressed, but the role of the central loop has largely remained unexplored. Here we examined the effect of the loop region in miRNA:MRE duplexes and found that the location of the central loop is one of the important factors affecting the efficiency of gene regulation mediated by miRNAs. It was further determined that the addition of a loop score combining both location and size as a new criterion for predicting MREs and their cognate miRNAs significantly decreased the false positive rates and increased the specificity of MRE prediction.
format	article
author	Wenbin Ye Qing Lv Chung-Kwun Amy Wong Sean Hu Chao Fu Zhong Hua Guoping Cai Guoxi Li Burton B Yang Yaou Zhang
author_facet	Wenbin Ye Qing Lv Chung-Kwun Amy Wong Sean Hu Chao Fu Zhong Hua Guoping Cai Guoxi Li Burton B Yang Yaou Zhang
author_sort	Wenbin Ye
title	The effect of central loops in miRNA:MRE duplexes on the efficiency of miRNA-mediated gene regulation.
title_short	The effect of central loops in miRNA:MRE duplexes on the efficiency of miRNA-mediated gene regulation.
title_full	The effect of central loops in miRNA:MRE duplexes on the efficiency of miRNA-mediated gene regulation.
title_fullStr	The effect of central loops in miRNA:MRE duplexes on the efficiency of miRNA-mediated gene regulation.
title_full_unstemmed	The effect of central loops in miRNA:MRE duplexes on the efficiency of miRNA-mediated gene regulation.
title_sort	effect of central loops in mirna:mre duplexes on the efficiency of mirna-mediated gene regulation.
publisher	Public Library of Science (PLoS)
publishDate	2008
url	https://doaj.org/article/8c6348d8a48d43a3b6460cb98488eec0
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The effect of central loops in miRNA:MRE duplexes on the efficiency of miRNA-mediated gene regulation.

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