Journal
JOURNAL OF THEORETICAL BIOLOGY
Volume 480, Issue -, Pages 274-283Publisher
ACADEMIC PRESS LTD- ELSEVIER SCIENCE LTD
DOI: 10.1016/j.jtbi.2019.06.022
Keywords
Essential protein; Protein-protein interaction network; Order statistic; Secondary structure
Categories
Funding
- National Natural Science Foundation of China (NSFC) [11701296]
- Natural Science Foundation of Tianjin [18JCQNJC09600]
- Key Laboratory for Medical Data Analysis and Statistical Research of Tianjin (KLMDASR)
- National Natural Science Foundation of China [61772552]
- Natural Science and Engineering Research Council of Canada (NSERC)
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Many computational methods have been proposed to predict essential proteins from protein-protein interaction (PPI) networks. However, it is still challenging to improve the prediction accuracy. In this study, we propose a new method, esPOS (essential proteins Predictor using Order Statistics) to predict essential proteins from PPI networks. Firstly, we refine the networks by using gene expression information and subcellular localization information. Secondly, we design some new features, which combine the protein predicted secondary structure with PPI network. We show that these new features are useful to predict essential proteins. Thirdly, we optimize these features by using a greedy method, and combine the optimized features by order statistic method. Our method achieves the prediction accuracy of 0.76-0.79 on two network datasets. (C) 2019 Elsevier Ltd. All rights reserved.
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