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General rules for functional microRNA targeting

Authors
 Doyeon Kim  ;  You Me Sung  ;  Jinman Park  ;  Sukjun Kim  ;  Jongkyu Kim  ;  Junhee Park  ;  Haeok Ha  ;  Jung Yoon Bae  ;  SoHui Kim  ;  Daehyun Ba다 
Citation
 NATURE GENETICS, Vol.48(12) : 1517-1526, 2016 
Journal Title
 NATURE GENETICS 
ISSN
 1061-4036 
Issue Date
2016
MeSH
3' Untranslated Regions/genetics* ; Binding Sites ; Computational Biology/methods* ; Gene Expression Profiling ; Gene Expression Regulation* ; Gene Regulatory Networks* ; Humans ; MicroRNAs/genetics* ; RNA, Messenger/genetics ; RNA, Messenger/metabolism*
Abstract
The functional rules for microRNA (miRNA) targeting remain controversial despite their biological importance because only a small fraction of distinct interactions, called site types, have been examined among an astronomical number of site types that can occur between miRNAs and their target mRNAs. To systematically discover functional site types and to evaluate the contradicting rules reported previously, we used large-scale transcriptome data and statistically examined whether each of approximately 2 billion site types is enriched in differentially downregulated mRNAs responding to overexpressed miRNAs. Accordingly, we identified seven non-canonical functional site types, most of which are novel, in addition to four canonical site types, while also removing numerous false positives reported by previous studies. Extensive experimental validation and significantly elevated 3' UTR sequence conservation indicate that these non-canonical site types may have biologically relevant roles. Our expanded catalog of functional site types suggests that the gene regulatory network controlled by miRNAs may be far more complex than currently understood.
Full Text
https://www.nature.com/articles/ng.3694
DOI
10.1038/ng.3694
Appears in Collections:
1. College of Medicine (의과대학) > Dept. of Pharmacology (약리학교실) > 1. Journal Papers
Yonsei Authors
Bae, Jung Yoon(배정윤) ORCID logo https://orcid.org/0000-0001-8342-6987
URI
https://ir.ymlib.yonsei.ac.kr/handle/22282913/166120
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