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Phogly-PseAAC: Prediction of lysine phosphoglycerylation in proteins incorporating with position-specific propensity

文献类型：期刊论文

作者Xu, Yan1; Ding, Ya-Xin1; Ding, Jun1; Wu, Ling-Yun2; Deng, Nai-Yang3
刊名JOURNAL OF THEORETICAL BIOLOGY
出版日期2015-08-21
卷号379页码:10-15
关键词Amino acid propensity F-score Phosphoglycerylation
ISSN号0022-5193
DOI10.1016/j.jtbi.2015.04.016
英文摘要Large-scale characterization of post-translational modifications (PTMs), such as posphorylation, acetylation and ubiquitination, has highlighted their importance in the regulation of a myriad of signaling events. However, as another type of PTMs-lysine phosphoglycerylation, the data of phosphoglycerylated sites has just been manually experimented in recent years. Given an uncharacterized protein sequence that contains many lysine residues, which one of them can be phosphoglycerylated and which one not? This is a challenging problem. In view of this, establishing a useful computational method and developing an efficient predictor are highly desired. Here a new predictor named Phogly-PseAAC was developed which incorporated with the position specific amino acid propensity. The feature importance through F-score value has also been ranked. The predictor with the best feature set obtained the accuracy 75.10%, sensitivity 68.87%, specificity 75.57% and MCC 0.2538 in LOO test cross validation with center nearest neighbor algorithm. Meanwhile, a web-server for Phogly-PseAAC is accessible at http://app.aporc.org/Phogly-PseAAC/. For the convenience of most experimental scientists, we have further provided a brief instruction for the web-server, by which users can easily get their desired results without the need to follow the complicated mathematics presented in this paper. It is anticipated that Phogly-PseAAC may become a useful high throughput tool for identifying the lysine phosphoglycerylation sites. (C) 2015 Elsevier Ltd. All rights reserved.
资助项目National Natural Science Foundation of China[11301024] ; National Natural Science Foundation of China[11371365] ; National Natural Science Foundation of China[31201002] ; National Natural Science Foundation of China[11131009]
WOS研究方向Life Sciences & Biomedicine - Other Topics ; Mathematical & Computational Biology
语种英语
WOS记录号WOS:000356839700002
出版者ACADEMIC PRESS LTD- ELSEVIER SCIENCE LTD
源URL[http://ir.amss.ac.cn/handle/2S8OKBNM/20158]  
专题应用数学研究所
通讯作者Xu, Yan
作者单位1.Univ Sci & Technol Beijing, Dept Informat & Comp Sci, Beijing 100083, Peoples R China
2.Chinese Acad Sci, Inst Appl Math, Acad Math & Syst Sci, Beijing 100190, Peoples R China
3.China Agr Univ, Coll Sci, Beijing 100083, Peoples R China
推荐引用方式
GB/T 7714		 Xu, Yan,Ding, Ya-Xin,Ding, Jun,et al. Phogly-PseAAC: Prediction of lysine phosphoglycerylation in proteins incorporating with position-specific propensity[J]. JOURNAL OF THEORETICAL BIOLOGY,2015,379:10-15.
APA Xu, Yan,Ding, Ya-Xin,Ding, Jun,Wu, Ling-Yun,&Deng, Nai-Yang.(2015).Phogly-PseAAC: Prediction of lysine phosphoglycerylation in proteins incorporating with position-specific propensity.JOURNAL OF THEORETICAL BIOLOGY,379,10-15.
MLA Xu, Yan,et al."Phogly-PseAAC: Prediction of lysine phosphoglycerylation in proteins incorporating with position-specific propensity".JOURNAL OF THEORETICAL BIOLOGY 379(2015):10-15.

入库方式： OAI收割

来源：数学与系统科学研究院

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