LNRLMI: Linear neighbour representation for predicting lncRNA-miRNA interactions
文献类型:期刊论文
作者 | Wong, L (Wong, Leon)[ 1,2 ]; Huang, YA (Huang, Yu-An)[ 3 ]; You, ZH (You, Zhu-Hong)[ 1,2 ]; Chen, ZH (Chen, Zhan-Heng)[ 1,2 ]; Cao, MY (Cao, Mei-Yuan)[ 4 ] |
刊名 | JOURNAL OF CELLULAR AND MOLECULAR MEDICINE |
出版日期 | 2019 |
卷号 | 24期号:1页码:79-87 |
ISSN号 | 1582-1838 |
关键词 | ceRNA network expression profile link prediction lncRNA-miRNA interaction |
DOI | 10.1111/jcmm.14583 |
英文摘要 | LncRNA and miRNA are key molecules in mechanism of competing endogenous RNAs(ceRNA), and their interactions have been discovered with important roles in gene regulation. As supplementary to the identification of lncRNA-miRNA interactions from CLIP-seq experiments, in silico prediction can select the most potential candidates for experimental validation. Although developing computational tool for predicting lncRNA-miRNA interaction is of great importance for deciphering the ceRNA mechanism, little effort has been made towards this direction. In this paper, we propose an approach based on linear neighbour representation to predict lncRNA-miRNA interactions (LNRLMI). Specifically, we first constructed a bipartite network by combining the known interaction network and similarities based on expression profiles of lncRNAs and miRNAs. Based on such a data integration, linear neighbour representation method was introduced to construct a prediction model. To evaluate the prediction performance of the proposed model, k-fold cross validations were implemented. As a result, LNRLMI yielded the average AUCs of 0.8475 +/- 0.0032, 0.8960 +/- 0.0015 and 0.9069 +/- 0.0014 on 2-fold, 5-fold and 10-fold cross validation, respectively. A series of comparison experiments with other methods were also conducted, and the results showed that our method was feasible and effective to predict lncRNA-miRNA interactions via a combination of different types of useful side information. It is anticipated that LNRLMI could be a useful tool for predicting non-coding RNA regulation network that lncRNA and miRNA are involved in. |
WOS记录号 | WOS:000488569000001 |
源URL | [http://ir.xjipc.cas.cn/handle/365002/7210] |
专题 | 新疆理化技术研究所_多语种信息技术研究室 |
通讯作者 | You, ZH (You, Zhu-Hong)[ 1,2 ] |
作者单位 | 1.Guang Dong Polytech Coll, Zhaoqing, Peoples R China 2.Hong Kong Polytech Univ, Dept Comp, Kowloon, Hong Kong, Peoples R China 3.Univ Chinese Acad Sci, Beijing, Peoples R China 4.Chinese Acad Sci, Xinjiang Tech Inst Phys & Chem, Urumqi 830011, Peoples R China |
推荐引用方式 GB/T 7714 | Wong, L ,Huang, YA ,You, ZH ,et al. LNRLMI: Linear neighbour representation for predicting lncRNA-miRNA interactions[J]. JOURNAL OF CELLULAR AND MOLECULAR MEDICINE,2019,24(1):79-87. |
APA | Wong, L ,Huang, YA ,You, ZH ,Chen, ZH ,&Cao, MY .(2019).LNRLMI: Linear neighbour representation for predicting lncRNA-miRNA interactions.JOURNAL OF CELLULAR AND MOLECULAR MEDICINE,24(1),79-87. |
MLA | Wong, L ,et al."LNRLMI: Linear neighbour representation for predicting lncRNA-miRNA interactions".JOURNAL OF CELLULAR AND MOLECULAR MEDICINE 24.1(2019):79-87. |
入库方式: OAI收割
来源:新疆理化技术研究所
其他版本
除非特别说明,本系统中所有内容都受版权保护,并保留所有权利。