XJIPC OpenIR  > 多语种信息技术研究室
Improving Prediction of Self-interacting Proteins Using Stacked Sparse Auto-Encoder with PSSM profiles
Wang, YB (Wang, Yan-Bin); You, ZH (You, Zhu-Hong); Li, LP (Li, Li-Ping); Huang, DS (Huang, De-Shuang); Zhou, FF (Zhou, Feng-Feng); Yang, S (Yang, Shan)
2018
Source PublicationINTERNATIONAL JOURNAL OF BIOLOGICAL SCIENCES
ISSN1449-2288
Volume14Issue:8Pages:983-991
Abstract

Self-interacting proteins (SIPs) play a significant role in the execution of most important molecular processes in cells, such as signal transduction, gene expression regulation, immune response and enzyme activation. Although the traditional experimental methods can be used to generate SIPs data, it is very expensive and time-consuming based only on biological technique. Therefore, it is important and urgent to develop an efficient computational method for SIPs detection. In this study, we present a novel SIPs identification method based on machine learning technology by combing the Zernike Moments (ZMs) descriptor on Position Specific Scoring Matrix (PSSM) with Probabilistic Classification Vector Machines (PCVM) and Stacked Sparse Auto-Encoder (SSAE). More specifically, an efficient feature extraction technique called ZMs is firstly utilized to generate feature vectors on Position Specific Scoring Matrix (PSSM); Then, Deep neural network is employed for reducing the feature dimensions and noise; Finally, the Probabilistic Classification Vector Machine is used to execute the classification. The prediction performance of the proposed method is evaluated on S.erevisiae and Human SIPs datasets via cross-validation. The experimental results indicate that the proposed method can achieve good accuracies of 92.55% and 97.47%, respectively. To further evaluate the advantage of our scheme for SIPs prediction, we also compared the PCVM classifier with the Support Vector Machine (SVM) and other existing techniques on the same data sets. Comparison results reveal that the proposed strategy is outperforms other methods and could be a used tool for identifying SIPs.

KeywordDeep Learning Zernike Moments Probabilistic Classification Vector Machines
DOI10.7150/ijbs.23817
Indexed BySCI
WOS IDWOS:000433262600020
Citation statistics
Cited Times:2[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.xjipc.cas.cn/handle/365002/5480
Collection多语种信息技术研究室
Corresponding AuthorYou, ZH (You, Zhu-Hong)
Affiliation1.Univ Chinese Acad Sci, Beijing 100049, Peoples R China
2.Chinese Acad Sci, Xinjiang Tech Inst Phys & Chem, Urumqi 830011, Peoples R China
3.Tongji Univ, Inst Machine Learning & Syst Biol, Sch Elect & Informat Engn, Caoan Rd 4800, Shanghai 201804, Peoples R China
4.Jilin Univ, Coll Comp Sci & Technol, Minist Educ, Changchun 130012, Jilin, Peoples R China
5.Jilin Univ, Key Lab Symbol Computat & Knowledge Engn, Minist Educ, Changchun 130012, Jilin, Peoples R China
Recommended Citation
GB/T 7714
Wang, YB ,You, ZH ,Li, LP ,et al. Improving Prediction of Self-interacting Proteins Using Stacked Sparse Auto-Encoder with PSSM profiles[J]. INTERNATIONAL JOURNAL OF BIOLOGICAL SCIENCES,2018,14(8):983-991.
APA Wang, YB ,You, ZH ,Li, LP ,Huang, DS ,Zhou, FF ,&Yang, S .(2018).Improving Prediction of Self-interacting Proteins Using Stacked Sparse Auto-Encoder with PSSM profiles.INTERNATIONAL JOURNAL OF BIOLOGICAL SCIENCES,14(8),983-991.
MLA Wang, YB ,et al."Improving Prediction of Self-interacting Proteins Using Stacked Sparse Auto-Encoder with PSSM profiles".INTERNATIONAL JOURNAL OF BIOLOGICAL SCIENCES 14.8(2018):983-991.
Files in This Item:
File Name/Size DocType Version Access License
Improving Prediction(945KB)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
[Wang, YB (Wang, Yan-Bin)]'s Articles
[You, ZH (You, Zhu-Hong)]'s Articles
[Li, LP (Li, Li-Ping)]'s Articles
Baidu academic
Similar articles in Baidu academic
[Wang, YB (Wang, Yan-Bin)]'s Articles
[You, ZH (You, Zhu-Hong)]'s Articles
[Li, LP (Li, Li-Ping)]'s Articles
Bing Scholar
Similar articles in Bing Scholar
[Wang, YB (Wang, Yan-Bin)]'s Articles
[You, ZH (You, Zhu-Hong)]'s Articles
[Li, LP (Li, Li-Ping)]'s Articles
Terms of Use
No data!
Social Bookmark/Share
File name: Improving Prediction of Self-interacting Proteins Using Stacked Sparse Auto-Encoder with PSSM profiles.pdf
Format: Adobe PDF
All comments (0)
No comment.
 

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