miREFRWR: a novel disease-related microRNA-environmental factor interactions prediction method

doi:10.1039/c5mb00697j

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	miREFRWR: a novel disease-related microRNA-environmental factor interactions prediction method
	Chen, Xing 1,2
	2016
发表期刊	MOLECULAR BIOSYSTEMS
ISSN	1742-206X
卷号	12 期号:2 页码:624-633
摘要	Increasing evidence has indicated that microRNAs (miRNAs) can functionally interact with environmental factors (EFs) to affect and determine human diseases. Uncovering the potential associations between diseases and miRNA-EF interactions could benefit the understanding of the underlying disease mechanism at miRNA and EF levels, miRNA signatures identification, and drug repurposing. In this study, based on the assumption that similar miRNAs (EFs) tend to interact with similar EFs (miRNAs) in the context of a given disease and under the framework of random walk with restart (RWR), a novel method of miREFRWR was developed to uncover the hidden disease-related miRNA-EF interactions by implementing random walks on an miRNA similarity network and EF similarity network, respectively. miREFRWR was evaluated by leave-one-out cross-validation, which achieved an AUC of 0.9500. It has been demonstrated that miREFRWR can effectively identify potential interactions in all the test classes, even if these test samples only share either EFs or miRNAs with the training samples. Furthermore, many predictive results for acute promyelocytic leukemia and breast cancer (67 and 10 interactions out of the top 1% predictions, respectively) have been verified by independent experimental studies. It is anticipated that miREFRWR could be a useful and important biological resource for biomedical research.
DOI	10.1039/c5mb00697j
语种	英语
资助项目	National Natural Science of Foundation of China[11301517] ; National Center for Mathematics and Interdisciplinary Sciences, CAS
WOS研究方向	Biochemistry & Molecular Biology
WOS类目	Biochemistry & Molecular Biology
WOS记录号	WOS:000368858900032
出版者	ROYAL SOC CHEMISTRY
引用统计
文献类型	期刊论文
条目标识符	http://ir.amss.ac.cn/handle/2S8OKBNM/21865
专题	中国科学院数学与系统科学研究院
通讯作者	Chen, Xing
作者单位	1.Chinese Acad Sci, Natl Ctr Math & Interdisciplinary Sci, Beijing 100190, Peoples R China 2.Chinese Acad Sci, Acad Math & Syst Sci, Beijing 100190, Peoples R China
推荐引用方式 GB/T 7714	Chen, Xing. miREFRWR: a novel disease-related microRNA-environmental factor interactions prediction method[J]. MOLECULAR BIOSYSTEMS,2016,12(2):624-633.
APA	Chen, Xing.(2016).miREFRWR: a novel disease-related microRNA-environmental factor interactions prediction method.MOLECULAR BIOSYSTEMS,12(2),624-633.
MLA	Chen, Xing."miREFRWR: a novel disease-related microRNA-environmental factor interactions prediction method".MOLECULAR BIOSYSTEMS 12.2(2016):624-633.