XJIPC OpenIR  > 多语种信息技术研究室
Identification of self-interacting proteins by exploring evolutionary information embedded in PSI-BLAST-constructed position specific scoring matrix
An, JY (An, Ji-Yong); You, ZH (You, Zhu-Hong); Chen, X (Chen, Xing); Huang, DS (Huang, De-Shuang); Li, ZW (Li, Zheng-Wei); Liu, G (Liu, Gang); Wang, Y (Wang, Yin)
2016
Source PublicationONCOTARGET
ISSN1949-2553
Volume7Issue:50Pages:82440-82449
Abstract

Self-interacting Proteins (SIPs) play an essential role in a wide range of biological processes, such as gene expression regulation, signal transduction, enzyme activation and immune response. Because of the limitations for experimental self-interaction proteins identification, developing an effective computational method based on protein sequence to detect SIPs is much important. In the study, we proposed a novel computational approach called RVMBIGP that combines the Relevance Vector Machine (RVM) model and Bi-gram probability (BIGP) to predict SIPs based on protein sequence. The proposed prediction model includes as following steps: (1) an effective feature extraction method named BIGP is used to represent protein sequences on Position Specific Scoring Matrix (PSSM); (2) Principal Component Analysis (PCA) method is employed for integrating the useful information and reducing the influence of noise; (3) the robust classifier Relevance Vector Machine (RVM) is used to carry out classification. When performed on yeast and human datasets, the proposed RVMBIGP model can achieve very high accuracies of 95.48% and 98.80%, respectively. The experimental results show that our proposed method is very promising and may provide a cost-effective alternative for SIPs identification. In addition, to facilitate extensive studies for future proteomics research, the RVMBIGP server is freely available for academic use at http://219.219.62.123:8888/RVMBIGP.

KeywordDisease Position-specific Scoring Matrix Protein Self-interaction Cancer
DOI10.18632/oncotarget.12517
Indexed BySCI
WOS IDWOS:000391352800040
Citation statistics
Document Type期刊论文
Identifierhttp://ir.xjipc.cas.cn/handle/365002/4714
Collection多语种信息技术研究室
Corresponding AuthorYou, ZH (You, Zhu-Hong)
Affiliation1.China Univ Min & Technol, Sch Comp Sci & Technol, Xuzhou 21116, Peoples R China
2.Chinese Acad Sci, Xinjiang Tech Inst Phys & Chem, Urumqi 830011, Peoples R China
3.China Univ Min & Technol, Sch Informat & Elect Engn, Xuzhou 221116, Peoples R China
4.Tongji Univ, Sch Elect & Informat Engn, Shanghai 201804, Peoples R China
5.Shenzhen Univ, Coll Comp Sci & Software Engn, Shenzhen 518060, Guangdong, Peoples R China
Recommended Citation
GB/T 7714
An, JY ,You, ZH ,Chen, X ,et al. Identification of self-interacting proteins by exploring evolutionary information embedded in PSI-BLAST-constructed position specific scoring matrix[J]. ONCOTARGET,2016,7(50):82440-82449.
APA An, JY .,You, ZH .,Chen, X .,Huang, DS .,Li, ZW .,...&Wang, Y .(2016).Identification of self-interacting proteins by exploring evolutionary information embedded in PSI-BLAST-constructed position specific scoring matrix.ONCOTARGET,7(50),82440-82449.
MLA An, JY ,et al."Identification of self-interacting proteins by exploring evolutionary information embedded in PSI-BLAST-constructed position specific scoring matrix".ONCOTARGET 7.50(2016):82440-82449.
Files in This Item:
File Name/Size DocType Version Access License
Identification of se(1035KB)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
[An, JY (An, Ji-Yong)]'s Articles
[You, ZH (You, Zhu-Hong)]'s Articles
[Chen, X (Chen, Xing)]'s Articles
Baidu academic
Similar articles in Baidu academic
[An, JY (An, Ji-Yong)]'s Articles
[You, ZH (You, Zhu-Hong)]'s Articles
[Chen, X (Chen, Xing)]'s Articles
Bing Scholar
Similar articles in Bing Scholar
[An, JY (An, Ji-Yong)]'s Articles
[You, ZH (You, Zhu-Hong)]'s Articles
[Chen, X (Chen, Xing)]'s Articles
Terms of Use
No data!
Social Bookmark/Share
File name: Identification of self-interacting proteins by exploring evolutionary information embedded in PSI-BLAST-constructed position specific scoring matrix.pdf
Format: Adobe PDF
All comments (0)
No comment.
 

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