XJIPC OpenIR  > 多语种信息技术研究室
Accurate Prediction of ncRNA-Protein Interactions From the Integration of Sequence and Evolutionary Information
Zhan, ZH (Zhan, Zhao-Hui)[ 1 ]; You, ZH (You, Zhu-Hong)[ 2 ]; Li, LP (Li, Li-Ping)[ 2 ]; Zhou, Y (Zhou, Yong)[ 1 ]; Yi, HC (Yi, Hai-Cheng)[ 2 ]
2018
Source PublicationFRONTIERS IN GENETICS
ISSN1664-8021
Volume9Issue:10Pages:1-9
Abstract

Non-coding RNA (ncRNA) plays a crucial role in numerous biological processes including gene expression and post-transcriptional gene regulation. The biological function of ncRNA is mostly realized by binding with related proteins. Therefore, an accurate understanding of interactions between ncRNA and protein has a significant impact on current biological research. The major challenge at this stage is the waste of a great deal of redundant time and resource consumed on classification in traditional interaction pattern prediction methods. Fortunately, an efficient classifier named LightGBM can solve this difficulty of long time consumption. In this study, we employed LightGBM as the integrated classifier and proposed a novel computational model for predicting ncRNA and protein interactions. More specifically, the pseudo-Zernike Moments and singular value decomposition algorithm are employed to extract the discriminative features from protein and ncRNA sequences. On four widely used datasets RP1369, RP1488, RPI1807, and RPI2241, we evaluated the performance of LGBM and obtained an superior performance with AUC of 0.799, 0.914, 0.989, and 0.762, respectively. The experimental results of 10-fold cross-validation shown that the proposed method performs much better than existing methods in predicting ncRNA-protein interaction patterns, which could be used as a useful tool in proteomics research.

KeywordNcrna-protein Interactions Pssm Lightgbm Pseudo-zernike Moments K-mers
DOI10.3389/fgene.2018.00458
Indexed BySCI
WOS IDWOS:000446620500001
Citation statistics
Cited Times:1[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.xjipc.cas.cn/handle/365002/5590
Collection多语种信息技术研究室
Corresponding AuthorYou, ZH (You, Zhu-Hong)[ 2 ]
Affiliation1.China Univ Min & Technol, Sch Comp Sci & Technol, Xuzhou, Jiangsu, Peoples R China
2.Chinese Acad Sci, Xinjiang Tech Inst Phys & Chem, Urumqi, Peoples R China
Recommended Citation
GB/T 7714
Zhan, ZH ,You, ZH ,Li, LP ,et al. Accurate Prediction of ncRNA-Protein Interactions From the Integration of Sequence and Evolutionary Information[J]. FRONTIERS IN GENETICS,2018,9(10):1-9.
APA Zhan, ZH ,You, ZH ,Li, LP ,Zhou, Y ,&Yi, HC .(2018).Accurate Prediction of ncRNA-Protein Interactions From the Integration of Sequence and Evolutionary Information.FRONTIERS IN GENETICS,9(10),1-9.
MLA Zhan, ZH ,et al."Accurate Prediction of ncRNA-Protein Interactions From the Integration of Sequence and Evolutionary Information".FRONTIERS IN GENETICS 9.10(2018):1-9.
Files in This Item:
File Name/Size DocType Version Access License
Accurate Prediction (1220KB)期刊论文作者接受稿开放获取CC BY-NC-SAView Application Full Text
Related Services
Recommend this item
Bookmark
Usage statistics
Export to Endnote
Google Scholar
Similar articles in Google Scholar
[Zhan, ZH (Zhan, Zhao-Hui)[ 1 ]]'s Articles
[You, ZH (You, Zhu-Hong)[ 2 ]]'s Articles
[Li, LP (Li, Li-Ping)[ 2 ]]'s Articles
Baidu academic
Similar articles in Baidu academic
[Zhan, ZH (Zhan, Zhao-Hui)[ 1 ]]'s Articles
[You, ZH (You, Zhu-Hong)[ 2 ]]'s Articles
[Li, LP (Li, Li-Ping)[ 2 ]]'s Articles
Bing Scholar
Similar articles in Bing Scholar
[Zhan, ZH (Zhan, Zhao-Hui)[ 1 ]]'s Articles
[You, ZH (You, Zhu-Hong)[ 2 ]]'s Articles
[Li, LP (Li, Li-Ping)[ 2 ]]'s Articles
Terms of Use
No data!
Social Bookmark/Share
File name: Accurate Prediction of ncRNA-Protein Interactions From the Integration of Sequence and Evolutionary Information.pdf
Format: Adobe PDF
All comments (0)
No comment.
 

Items in the repository are protected by copyright, with all rights reserved, unless otherwise indicated.