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Journal of Visualized Experiments : Jove|October 11, 2021
A Virtual Machine Platform for Non-Computer Professionals for Using Deep Learning to Classify Biological Sequences of Metagenomic DataZhencheng Fang, Hongwei ZhouMicrobial Genomics|October 19, 2020
Identification of the conjugative and mobilizable plasmid fragments in the plasmidome using sequence signaturesZhencheng Fang, Hongwei ZhouFrontiers in Microbiology|February 22, 2021
VirionFinder: Identification of Complete and Partial Prokaryote Virus Virion Protein From Virome Data Using the Sequence and Biochemical Properties of Amino AcidsZhencheng Fang, Hongwei ZhouFrontiers in Microbiology|February 4, 2022
Corrigendum: VirionFinder: Identification of Complete and Partial Prokaryote Virus Virion Protein From Virome Data Using the Sequence and Biochemical Properties of Amino AcidsZhencheng Fang, Hongwei ZhouGigascience|August 11, 2022
DeePVP: Identification and classification of phage virion proteins using deep learningZhencheng Fang, Tao Feng, Hongwei Zhou, et al.Gigascience|August 5, 2024
MOBFinder: a tool for mobilization typing of plasmid metagenomic fragments based on a language modelTao Feng, Shufang Wu, Hongwei Zhou, et al.Microbial Genomics|February 11, 2025
Predicting the bacterial host range of plasmid genomes using the language model-based one-class support vector machine algorithmTao Feng, Xirao Chen, Shufang Wu, et al.Journal of Mass Spectrometry and Advances in the Clinical Lab|November 28, 2025
Interpretable machine learning of clinical MALDI-TOF spectra discriminates carbapenem-resistant Klebsiella pneumoniae while revealing phylogenetic heterogeneity that limits model generalizabilityChuangye Cai, Mengxue Zou, Mingxiao Chen, et al.Briefings in Bioinformatics|March 15, 2024
metaProbiotics: a tool for mining probiotic from metagenomic binning data based on a language modelShufang Wu, Tao Feng, Waijiao Tang, et al.Annals of Medicine|December 18, 2024
Maternal group B Streptococcus decreases infant length and alters the early-life microbiome: a prospective cohort studyShanshan Li, Qijun Liang, Wei Qing, et al.Pageof 50