ITP OpenIR  > 理论物理所科研产出  > SCI论文
Gong, HE; Zhang, HC; Zhu, JW; Wang, C; Sun, SW; Zheng, WM; Bu, DB; Bu, DB (reprint author), Chinese Acad Sci, Inst Comp Technol, Key Lab Intelligent Proc, Beijing 100190, Peoples R China.; Zheng, WM (reprint author), Chinese Acad Sci, Inst Theoret Phys, Beijing 100190, Peoples R China.
Improving prediction of burial state of residues by exploiting correlation among residues
Source PublicationBMC BIOINFORMATICS
Language英语
KeywordProtein Structure Burial States Of Residue Conditional Random Field Residue Correlation
AbstractBackground: Residues in a protein might be buried inside or exposed to the solvent surrounding the protein. The buried residues usually form hydrophobic cores to maintain the structural integrity of proteins while the exposed residues are tightly related to protein functions. Thus, the accurate prediction of solvent accessibility of residues will greatly facilitate our understanding of both structure and functionalities of proteins. Most of the state-of-the-art prediction approaches consider the burial state of each residue independently, thus neglecting the correlations among residues. Results: In this study, we present a high-order conditional random field model that considers burial states of all residues in a protein simultaneously. Our approach exploits not only the correlation among adjacent residues but also the correlation among long-range residues. Experimental results showed that by exploiting the correlation among residues, our approach outperformed the state-of-the-art approaches in prediction accuracy. In-depth case studies also showed that by using the high-order statistical model, the errors committed by the bidirectional recurrent neural network and chain conditional random field models were successfully corrected. Conclusions: Our methods enable the accurate prediction of residue burial states, which should greatly facilitate protein structure prediction and evaluation.
2017
Volume18Pages:70
Subject AreaBiochemistry & Molecular Biology ; Biotechnology & Applied Microbiology ; Mathematical & Computational Biology
DOIhttp://dx.doi.org/10.1186/s12859-017-1475-5
Funding OrganizationNational Basic Research Program of China [2012CB316502] ; National Basic Research Program of China [2012CB316502] ; National Basic Research Program of China [2012CB316502] ; National Basic Research Program of China [2012CB316502] ; National Natural Science Foundation of China [11175224, 11121403, 31270834, 61272318, 31671369] ; National Natural Science Foundation of China [11175224, 11121403, 31270834, 61272318, 31671369] ; National Natural Science Foundation of China [11175224, 11121403, 31270834, 61272318, 31671369] ; National Natural Science Foundation of China [11175224, 11121403, 31270834, 61272318, 31671369]
Citation statistics
Document Type期刊论文
Identifierhttp://ir.itp.ac.cn/handle/311006/22106
Collection理论物理所科研产出_SCI论文
Corresponding AuthorBu, DB (reprint author), Chinese Acad Sci, Inst Comp Technol, Key Lab Intelligent Proc, Beijing 100190, Peoples R China.; Zheng, WM (reprint author), Chinese Acad Sci, Inst Theoret Phys, Beijing 100190, Peoples R China.
Recommended Citation
GB/T 7714
Gong, HE,Zhang, HC,Zhu, JW,et al. Improving prediction of burial state of residues by exploiting correlation among residues[J]. BMC BIOINFORMATICS,2017,18:70.
APA Gong, HE.,Zhang, HC.,Zhu, JW.,Wang, C.,Sun, SW.,...&Zheng, WM .(2017).Improving prediction of burial state of residues by exploiting correlation among residues.BMC BIOINFORMATICS,18,70.
MLA Gong, HE,et al."Improving prediction of burial state of residues by exploiting correlation among residues".BMC BIOINFORMATICS 18(2017):70.
Files in This Item:
File Name/Size DocType Version Access License
Improving prediction(1505KB) 开放获取--Application Full Text
Related Services
Recommend this item
Bookmark
Usage statistics
Export to Endnote
Google Scholar
Similar articles in Google Scholar
[Gong, HE]'s Articles
[Zhang, HC]'s Articles
[Zhu, JW]'s Articles
Baidu academic
Similar articles in Baidu academic
[Gong, HE]'s Articles
[Zhang, HC]'s Articles
[Zhu, JW]'s Articles
Bing Scholar
Similar articles in Bing Scholar
[Gong, HE]'s Articles
[Zhang, HC]'s Articles
[Zhu, JW]'s Articles
Terms of Use
No data!
Social Bookmark/Share
All comments (0)
No comment.
 

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