iAFP-Ense: An Ensemble Classifier for Identifying Antifreeze Protein by Incorporating Grey Model and PSSM into PseAAC.
Antifreeze proteins (AFPs), known as thermal hysteresis proteins, are ice-binding proteins. AFPs have been found in many fields such as in vertebrates, invertebrates, plants, bacteria, and fungi. Although the function of AFPs is common, the sequences and structures of them show a high degree of diversity. AFPs can be adsorbed in ice crystal surface and inhibit the growth of ice crystals in solution. However, the interaction between AFPs and ice crystal is not completely known for human beings. It is vitally significant to propose an automated means as a high-throughput tool to timely identify the AFPs. Analyzing physicochemical characteristics of AFPs sequences is very significant to understand the ice-protein interaction. In this manuscript, a predictor called "iAFP-Ense" was developed. The operation engine to run the AFPs prediction is an ensemble classifier formed by a voting system to fuse eleven different random forest classifiers based on feature extraction. We also compare our predictor with the AFP-PseAAC via the tenfold cross-validation on the same benchmark dataset. The comparison with the existing methods indicates the new predictor is very promising, meaning that many important key features which are deeply hidden in complicated protein sequences. The predictor used in this article is freely available at http://www.jci-bioinfo.cn/iAFP-Ense .
Computer Department, Jing-De-Zhen Ceramic Institute, Jing-De-Zhen, 333403, China. jdzxiaoxuan@163.com.|School of Computer and Software, Nanjing University of Information Science and Technology, Nanjing, 210044, China. jdzxiaoxuan@163.com.
Xuan
X
Xiao
Computer Department, Jing-De-Zhen Ceramic Institute, Jing-De-Zhen, 333403, China.
Mengjuan
M
Hui
School of Computer Science and Engineering, Nanjing University of Science and Technology, Nanjing, 210094, China.
Zi
Z
Liu
D000465:Algorithms; D021301:Antifreeze Proteins / Q000737:chemistry* / Q000145:classification*; D019295:Computational Biology / Q000379:methods*; D008962:Models, Theoretical; D012984:Software; D064878:Web Browser
D021301:Antifreeze Proteins
Antifreeze proteins; Ensemble classifier; Tenfold cross-validation; Voting system; iAFP-Ense