TY - JOUR
T1 - miRNA-miRNA crosstalk
T2 - From genomics to phenomics
AU - Xu, Juan
AU - Shao, Tingting
AU - Ding, Na
AU - Li, Yongsheng
AU - Li, Xia
N1 - Funding Information:
This work was supported by the National High Technology Research and Development Program of China [863 Program, Grant No. 2014AA021102], the National Program on Key Basic Research Project [973 Program, Grant No. 2014CB910504], the funds for Creative Research Groups of the National Natural Science Foundation of China [81421063], the National Natural Science Foundation of China [Grant Nos. 91439117, 61473106, 31571331 and 61502126], the China Postdoctoral Science Foundation [Grant Nos. 2016T90309, 2014T70364, 2015M571436 and LBH-Z14134], Natural Science Foundation of Heilongjiang Province [Grant No. QC2015020].
Publisher Copyright:
© The Author 2017. Published by Oxford University Press. All rights reserved.
PY - 2017/11/1
Y1 - 2017/11/1
N2 - The discovery of microRNA (miRNA)-miRNA crosstalk has greatly improved our understanding of complex gene regulatory networks in normal and disease-specific physiological conditions. Numerous approaches have been proposed for modeling miRNA-miRNA networks based on genomic sequences, miRNA-mRNA regulation, functional information and phenomics alone, or by integrating heterogeneous data. In addition, it is expected that miRNA-miRNA crosstalk can be reprogrammed in different tissues or specific diseases. Thus, transcriptome data have also been integrated to construct context-specific miRNA-miRNA networks. In this review, we summarize the state-of-the-art miRNA-miRNA network modeling methods, which range from genomics to phenomics, where we focus on the need to integrate heterogeneous types of omics data. Finally, we suggest future directions for studies of crosstalk of noncoding RNAs. This comprehensive summarization and discussion elucidated in this work provide constructive insights into miRNA-miRNA crosstalk.
AB - The discovery of microRNA (miRNA)-miRNA crosstalk has greatly improved our understanding of complex gene regulatory networks in normal and disease-specific physiological conditions. Numerous approaches have been proposed for modeling miRNA-miRNA networks based on genomic sequences, miRNA-mRNA regulation, functional information and phenomics alone, or by integrating heterogeneous data. In addition, it is expected that miRNA-miRNA crosstalk can be reprogrammed in different tissues or specific diseases. Thus, transcriptome data have also been integrated to construct context-specific miRNA-miRNA networks. In this review, we summarize the state-of-the-art miRNA-miRNA network modeling methods, which range from genomics to phenomics, where we focus on the need to integrate heterogeneous types of omics data. Finally, we suggest future directions for studies of crosstalk of noncoding RNAs. This comprehensive summarization and discussion elucidated in this work provide constructive insights into miRNA-miRNA crosstalk.
KW - Genomics
KW - Global and context specific
KW - MiRNA-miRNA crosstalk
KW - MiRNA-target interaction
KW - Phenomics
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U2 - 10.1093/bib/bbw073
DO - 10.1093/bib/bbw073
M3 - Article
C2 - 27551063
AN - SCOPUS:85039170937
SN - 1467-5463
VL - 18
SP - 1002
EP - 1011
JO - Briefings in bioinformatics
JF - Briefings in bioinformatics
IS - 6
ER -