HPClas: A data‐driven approach for identifying halophilic proteins based on catBoost

Author:

Hu Shantong1,Wang Xiaoyu2,Wang Zhikang2,Jiang Menghan1,Wang Shihui1,Wang Wenya1,Song Jiangning2,Zhang Guimin1ORCID

Affiliation:

1. College of Life Science and Technology Beijing University of Chemical Technology Beijing China

2. Monash Biomedicine Discovery Institute and Department of Biochemistry and Molecular Biology Monash University Melbourne Victoria Australia

Abstract

AbstractHalophilic proteins possess unique structural properties and show high stability under extreme conditions. This distinct characteristic makes them invaluable for application in various aspects such as bioenergy, pharmaceuticals, environmental clean‐up, and energy production. Generally, halophilic proteins are discovered and characterized through labor‐intensive and time‐consuming wet lab experiments. In this study, we introduce the Halophilic Protein Classifier (HPClas), a machine learning‐based classifier developed using the catBoost ensemble learning technique to identify halophilic proteins. Extensive in silico calculations were conducted on a large public dataset of 12,574 samples and HPClas achieved an area under the receiver operating characteristic curve (AUROC) of 0.844 on an independent test set of 200 samples. The source code and curated dataset of HPClas are publicly available at https://github.com/Showmake2/HPClas. In conclusion, HPClas can be explored as a promising tool to aid in the identification of halophilic proteins and accelerate their application in different fields.

Funder

National Natural Science Foundation of China

Fundamental Research Funds for the Central Universities

Publisher

Wiley

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