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Updated: Oct 24, 2025
Phage Phenomics: Physiological Approaches to Characterize Novel Viral Proteins
Published on: June 11, 2015
HoPhage: an ab initio tool for identifying hosts of phage fragments from metaviromes
Jie Tan1, Zhencheng Fang1, Shufang Wu1
1State Key Laboratory for Turbulence and Complex Systems, Department of Biomedical Engineering, College of Engineering and Center for Quantitative Biology, Peking University, Beijing 100871, China.
Summary:
We present HoPhage (Host of Phage) to identify the host of a given phage fragment from metavirome data at the genus level. HoPhage integrates two modules using a deep learning algorithm and a Markov chain model, respectively. HoPhage achieves 47.90% and 82.47% mean accuracy at the genus and phylum levels for ∼1-kb long artificial phage fragments when predicting host among 50 genera, representing 7.54-20.22% and 13.55-24.31% improvement, respectively. By testing on three real virome samples, HoPhage yields 81.11% mean accuracy at the genus level within a much broader candidate host range.
Availability And Implementation:
HoPhage is available at http://cqb.pku.edu.cn/ZhuLab/HoPhage/data/.
Supplementary Information:
Supplementary data are available at Bioinformatics online.
