miRSM: an R package to infer and analyse miRNA sponge modules in heterogeneous data

doi:10.1080/15476286.2021.1905341

	miRSM: an R package to infer and analyse miRNA sponge modules in heterogeneous data
	Zhang, Junpeng 2,3; Liu, Lin 4; Xu, Taosheng 1; Zhang, Wu 5; Zhao, Chunwen 3; Li, Sijing 3; Li, Jiuyong 4; Rao, Nini 2,3; Le, Thuc Duy 4
刊名	RNA BIOLOGY
	2021-04-08
关键词	miRNA lncRNA ceRNA miRNA sponge modules modular analysis
ISSN号	1547-6286
DOI	10.1080/15476286.2021.1905341
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	In molecular biology, microRNA (miRNA) sponges are RNA transcripts which compete with other RNA transcripts for binding with miRNAs. Research has shown that miRNA sponges have a fundamental impact on tissue development and disease progression. Generally, to achieve a specific biological function, miRNA sponges tend to form modules or communities in a biological system. Until now, however, there is still a lack of tools to aid researchers to infer and analyse miRNA sponge modules from heterogeneous data. To fill this gap, we develop an R/Bioconductor package, miRSM, for facilitating the procedure of inferring and analysing miRNA sponge modules. miRSM provides a collection of 50 co-expression analysis methods to identify gene co-expression modules (which are candidate miRNA sponge modules), four module discovery methods to infer miRNA sponge modules and seven modular analysis methods for investigating miRNA sponge modules. miRSM will enable researchers to quickly apply new datasets to infer and analyse miRNA sponge modules, and will consequently accelerate the research on miRNA sponges.
资助项目	National Natural Science Foundation of China[61720106004] ; National Natural Science Foundation of China[61902372] ; National Natural Science Foundation of China[61963001] ; National Natural Science Foundation of China[61702069] ; National Natural Science Foundation of China[61872405] ; Yunnan Fundamental Research Projects[202001AT070024] ; National Health & Medical Research Council (NHMRC)[1123042] ; Australian Research Council[DP170101306]
WOS研究方向	Biochemistry & Molecular Biology
语种	英语
出版者	TAYLOR & FRANCIS INC
WOS记录号	WOS:000637240500001
资助机构	National Natural Science Foundation of China ; Yunnan Fundamental Research Projects ; National Health & Medical Research Council (NHMRC) ; Australian Research Council
内容类型	期刊论文
源URL	[http://ir.hfcas.ac.cn:8080/handle/334002/121621]
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.Chinese Acad Sci, Hefei Inst Phys Sci, Inst Intelligent Machines, Hefei, Anhui, Peoples R China 2.Univ Elect Sci & Technol China, Sch Life Sci & Technol, Ctr Informat Biol, Chengdu, Sichuan, Peoples R China 3.Dali Univ, Sch Engn, Dali 671003, Yunnan, Peoples R China 4.Univ South Australia, UniSA STEM, Mawson Lakes, SA, Australia 5.Dali Univ, Sch Agr & Biol Sci, Dali, Yunnan, Peoples R China
推荐引用方式 GB/T 7714	Zhang, Junpeng,Liu, Lin,Xu, Taosheng,et al. miRSM: an R package to infer and analyse miRNA sponge modules in heterogeneous data[J]. RNA BIOLOGY,2021.
APA	Zhang, Junpeng.,Liu, Lin.,Xu, Taosheng.,Zhang, Wu.,Zhao, Chunwen.,...&Le, Thuc Duy.(2021).miRSM: an R package to infer and analyse miRNA sponge modules in heterogeneous data.RNA BIOLOGY.
MLA	Zhang, Junpeng,et al."miRSM: an R package to infer and analyse miRNA sponge modules in heterogeneous data".RNA BIOLOGY (2021).