the effect of central loops in mirnamre duplexes on the efficiency of mirna-mediated gene regulation中央循环的影响mirnamre工器上mirna-mediated基因调控的效率.pdf

The Effect of Central Loops in miRNA:MRE Duplexes on the Efficiency of miRNA-Mediated Gene Regulation 1,2. 1,2. 3 4 1,2 2 2 Wenbin Ye , Qing Lv , Chung-Kwun Amy Wong , Sean Hu , Chao Fu , Zhong Hua , Guoping Cai , Guoxi Li4, Burton B. Yang3*, Yaou Zhang2* 1 Department of Biological Science and Biotechnology, Tsinghua University, Beijing, People’s Republic of China, 2 Division of Life Science, Graduate School at Shenzhen, Tsinghua University, Shenzhen, People’s Republic of China, 3 Sunnybrook Research Institute, Sunnybrook Health Sciences Centre, Department of Laboratory Medicine and Pathology, University of Toronto, Toronto, Canada, 4 Shenzhen Beike Biotechnology Co., Ltd., Shenzhen, People’s Republic of China Abstract 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 59 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 predict