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Time to infer miRNA sponge modules

文献类型：期刊论文

作者Zhang, Junpeng4,5; Liu, Lin1; Xu, Taosheng2; Zhang, Wu3; Li, Jiuyong1; Rao, Nini4; Le, Thuc Duy1
刊名WILEY INTERDISCIPLINARY REVIEWS-RNA
出版日期2021-08-03
ISSN号1757-7004
关键词ceRNA gene co-expression module human cancer miRNA miRNA sponge module
DOI10.1002/wrna.1686
通讯作者Zhang, Junpeng(zhangjunpeng_411@yahoo.com) ; Rao, Nini(raonn@uestc.edu.cn) ; Le, Thuc Duy(thuc.le@unisa.edu.au)
英文摘要Inferring competing endogenous RNA (ceRNA) or microRNA (miRNA) sponge modules is a challenging and meaningful task for revealing ceRNA regulation mechanism at the module level. Modules in this context refer to groups of miRNA sponges which have mutual competitions and act as functional units for achieving biological processes. The recent development of computational methods based on heterogeneous data provides a novel way to discern the competitive effects of miRNA sponges on human complex diseases. This article aims to provide a comprehensive perspective of miRNA sponge module discovery methods. We first review the publicly available databases of cancer-related miRNA sponges, as the miRNA sponges involved in human cancers contribute to the discovery of cancer-associated modules. Then we review the existing computational methods for inferring miRNA sponge modules. Furthermore, we conduct an assessment on the performance of the module discovery methods with the pan-cancer dataset, and the comparison study indicates that it is useful to infer biologically meaningful miRNA sponge modules by directly mapping heterogeneous data to the competitive modules. Finally, we discuss the future directions and associated challenges in developing in silico methods to infer miRNA sponge modules. This article is categorized under: RNA Interactions with Proteins and Other Molecules > Small Molecule-RNA Interactions Regulatory RNAs/RNAi/Riboswitches > Regulatory RNAs
WOS关键词EPITHELIAL-MESENCHYMAL TRANSITION ; INTERACTION NETWORKS ; COMMUNITY STRUCTURE ; MESSENGER-RNA ; CERNA ; CANCER ; IDENTIFICATION ; ALGORITHM ; EMT ; BIOMARKERS
资助项目Australian Research Council Discovery Grant[DP170101306] ; National Health & Medical Research Council Grant[1123042] ; National Natural Science Foundation of China[61963001] ; National Natural Science Foundation of China[61702069] ; National Natural Science Foundation of China[61872405] ; National Natural Science Foundation of China[61720106004] ; National Natural Science Foundation of China[6190237] ; Yunnan Fundamental Research Projects[202001AT070024]
WOS研究方向Cell Biology
语种英语
出版者WILEY
WOS记录号WOS:000680489200001
资助机构Australian Research Council Discovery Grant ; National Health & Medical Research Council Grant ; National Natural Science Foundation of China ; Yunnan Fundamental Research Projects
源URL[http://ir.hfcas.ac.cn:8080/handle/334002/123209]  
专题中国科学院合肥物质科学研究院
通讯作者Zhang, Junpeng; Rao, Nini; Le, Thuc Duy
作者单位1.Univ South Australia, UniSA STEM, Mawson Lakes, SA 5095, Australia
2.Chinese Acad Sci, Hefei Inst Phys Sci, Inst Intelligent Machines, Hefei, Anhui, Peoples R China
3.Dali Univ, Sch Agr & Biol Sci, Dali, Yunnan, Peoples R China
4.Univ Elect Sci & Technol China, Sch Life Sci & Technol, Ctr Informat Biol, Chengdu 610054, Sichuan, Peoples R China
5.Dali Univ, Sch Engn, Dali, Yunnan, Peoples R China
推荐引用方式
GB/T 7714		 Zhang, Junpeng,Liu, Lin,Xu, Taosheng,et al. Time to infer miRNA sponge modules[J]. WILEY INTERDISCIPLINARY REVIEWS-RNA,2021.
APA Zhang, Junpeng.,Liu, Lin.,Xu, Taosheng.,Zhang, Wu.,Li, Jiuyong.,...&Le, Thuc Duy.(2021).Time to infer miRNA sponge modules.WILEY INTERDISCIPLINARY REVIEWS-RNA.
MLA Zhang, Junpeng,et al."Time to infer miRNA sponge modules".WILEY INTERDISCIPLINARY REVIEWS-RNA (2021).

入库方式： OAI收割

来源：合肥物质科学研究院

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