miRTar: an integrated system for identifying miRNA-target interactions in human.
miRTar: an integrated system for identifying miRNA-target interactions in human.
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DOI：
10.1186/1471-2105-12-300
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发表时间：
2011-07-26
影响因子：
3
通讯作者：
Huang HD
中科院分区：
文献类型：
--
作者：
Hsu JB;Chiu CM;Hsu SD;Huang WY;Chien CH;Lee TY;Huang HD
microRNA（miRNAs）是一种非编码RNA小分子，其长度约为22 nt，能够抑制蛋白质合成。先前的研究表明，miRNA调节30%或更多的人类蛋白质编码基因。本工作的目的是考虑各种分析方案，在确定的miRNA的目标相互作用，以及提供一个集成的系统，将有助于促进研究的影响，miRNA的目标通过选择性剪接和生物学功能的miRNA的生物学途径。本工作提出了一个集成的系统，miRTar，它采用各种分析方案来确定基因转录本的推定的miRNA靶位点，并阐明了miRNA在生物学途径中对其靶点的生物学功能。该系统有三大特点。首先，预测系统能够考虑各种分析方案（1个miRNA：1个基因、1：N、N：1、N：M、所有miRNA：N个基因和N个miRNA：参与途径的基因），以容易地鉴定在3 'UTR、5' UTR和编码区中感兴趣的miRNA与其靶之间的调控关系。其次，miRTar可以分析和突出一组参与特定KEGG途径的miRNA调控基因，以阐明miRNA在生物学途径中的生物学作用。第三，miRTar可以为阐明miRNA调控提供进一步的信息，即，miRNA-靶相互作用，受选择性剪接影响。在这项工作中，我们开发了一个综合资源miRTar，使生物学家能够轻松地识别一组已知/推定的miRNA和蛋白质编码基因之间的生物学功能和调控关系。miRTar现已在http://miRTar.mbc.nctu.edu.tw/上提供。
MicroRNAs (miRNAs) are small non-coding RNA molecules that are ~22-nt-long sequences capable of suppressing protein synthesis. Previous research has suggested that miRNAs regulate 30% or more of the human protein-coding genes. The aim of this work is to consider various analyzing scenarios in the identification of miRNA-target interactions, as well as to provide an integrated system that will aid in facilitating investigation on the influence of miRNA targets by alternative splicing and the biological function of miRNAs in biological pathways. This work presents an integrated system, miRTar, which adopts various analyzing scenarios to identify putative miRNA target sites of the gene transcripts and elucidates the biological functions of miRNAs toward their targets in biological pathways. The system has three major features. First, the prediction system is able to consider various analyzing scenarios (1 miRNA:1 gene, 1:N, N:1, N:M, all miRNAs:N genes, and N miRNAs: genes involved in a pathway) to easily identify the regulatory relationships between interesting miRNAs and their targets, in 3'UTR, 5'UTR and coding regions. Second, miRTar can analyze and highlight a group of miRNA-regulated genes that participate in particular KEGG pathways to elucidate the biological roles of miRNAs in biological pathways. Third, miRTar can provide further information for elucidating the miRNA regulation, i.e., miRNA-target interactions, affected by alternative splicing. In this work, we developed an integrated resource, miRTar, to enable biologists to easily identify the biological functions and regulatory relationships between a group of known/putative miRNAs and protein coding genes. miRTar is now available at http://miRTar.mbc.nctu.edu.tw/.
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影响因子：
14.9
作者：
Benson DA;Karsch-Mizrachi I;Lipman DJ;Ostell J;Sayers EW
通讯作者：
Sayers EW
miRNAMAP：哺乳动物基因组中microRNA基因及其靶基因的基因组图。
影响因子：
14.9
作者：
Hsu, Paul W. C.;Huang, Hsien-Da;Hsu, Sheng-Da;Lin, Li-Zen;Tsou, Ann-Ping;Tseng, Ching-Ping;Stadler, Peter F.;Washietl, Stefan;Hofacker, Ivo L.
通讯作者：
Hofacker, Ivo L.
影响因子：
3
作者：
Gaidatzis D;van Nimwegen E;Hausser J;Zavolan M
通讯作者：
Zavolan M
影响因子：
2.6
作者：
Ghigna C;Valacca C;Biamonti G
通讯作者：
Biamonti G
影响因子：
12.3
作者：
Chen L;Zheng S
通讯作者：
Zheng S