Improving prediction of burial state of residues by exploiting correlation among residues
文献类型：期刊论文
| 作者 | 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.
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| 刊名 | BMC BIOINFORMATICS
 |
| 出版日期 | 2017 |
| 卷号 | 18页码:70 |
| 关键词 | Protein Structure Burial States Of Residue Conditional Random Field Residue Correlation |
| DOI | http://dx.doi.org/10.1186/s12859-017-1475-5 |
| 英文摘要 | Background: 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. |
| 学科主题 | Biochemistry & Molecular Biology ; Biotechnology & Applied Microbiology ; Mathematical & Computational Biology |
| 语种 | 英语 |
| 源URL | [http://ir.itp.ac.cn/handle/311006/22106]  |
| 专题 | 理论物理研究所_理论物理所1978-2010年知识产出 |
| 通讯作者 | 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. |
| 推荐引用方式 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. |
入库方式： OAI收割
来源：理论物理研究所
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