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Briefings in Bioinformatics|November 24, 2025
From genomic signals to prediction tools: a critical feature analysis and rigorous benchmark for phage-host predictionJiayu Shang, Cheng Peng, Jiaojiao Guan, et al.
Bioinformatics (Oxford, England)|July 15, 2025
GiantHunter: accurate detection of giant virus in metagenomic data using reinforcement-learning and Monte Carlo tree searchFuchuan Qu, Cheng Peng, Jiaojiao Guan, et al.
Nucleic Acids Research|April 23, 2026
PhaBOX2: an enhanced web server for discovering and analyzing viral contigs in metagenomic dataJiayu Shang, Cheng Peng, Jiaojiao Guan, et al.
Bioinformatics (Oxford, England)|July 7, 2026
PhageMind: generalized strain-level phage host range prediction via meta-learningYang Shen, Keming Shi, Chen Yu, et al.
Briefings in Bioinformatics|January 22, 2025
GOPhage: protein function annotation for bacteriophages by integrating the genomic contextJiaojiao Guan, Yongxin Ji, Cheng Peng, et al.
Gigascience|December 20, 2024
PlasGO: enhancing GO-based function prediction for plasmid-encoded proteins based on genetic structureYongxin Ji, Jiayu Shang, Jiaojiao Guan, et al.
Molecular Biology and Evolution|August 13, 2024
SegVir: Reconstruction of Complete Segmented RNA Viral Genomes from MetatranscriptomesXubo Tang, Jiayu Shang, Guowei Chen, et al.
Bioinformatics (Oxford, England)|September 24, 2024
Accurate and efficient protein embedding using multi-teacher distillation learningJiayu Shang, Cheng Peng, Yongxin Ji, et al.
Water Research|November 17, 2023
Identifying ARG-carrying bacteriophages in a lake replenished by reclaimed water using deep learning techniquesDonglin Wang, Jiayu Shang, Hui Lin, et al.
Environmental Research|June 11, 2025
Dissecting the gut microbial communities and resistomes of wild rats from different ecological areas in Hong KongCaifang Wen, Jiaojiao Guan, Theethawat Uea-Anuwong, et al.
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