Liu G#, Li X#, Guan J#, Tai C, Weng Y, Chen X*, Ou HY* (2025) oriTDB: a database of the origin-of-transfer regions of bacterial mobile genetic elements. Nucleic Acids Research, 53(D1):D163–D168.

Guan J, Chen Y, Goh YX, Wang M, Tai C, Deng Z, Song J, Ou HY* (2024) TADB 3.0: an updated database of bacterial toxin-antitoxin loci and associated mobile genetic elements. Nucleic Acids Research, 52(D1):D784–D790. 

Wang M#, Liu G#, Liu M, Tai C, Deng Z, Song J, Ou HY* (2024) ICEberg 3.0: functional categorization and analysis of the integrative and conjugative elements in bacteria. Nucleic Acids Research, 52(D1):D732–D737.

Zhang Y, Wang Z, Jiang Y, Littler DR, Gerstein M, Purcell1 AW, Rossjohn J, Ou HY*, Song J* (2024) Epitope-anchored contrastive transfer learning for paired CD8⁺ T cell receptor-antigen recognition. Nature Machine Intelligence, 6:1344–1358.

Chen Y#, Goh YX#, Li P#, Guan J, Chao Y, Qu H*, Ou HY*, Wang X* (2024) RES-Xre toxin-antitoxin locus knaAT maintains the stability of the virulence plasmid in Klebsiella pneumoniae. Emerging Microbes & Infections, 13(1):2316814. 

Zhang Y, Guan J, Li C, Wang Z, Deng Z, Gasser RB, Song J*, Ou HY* (2023) DeepSecE: a deep learning-based framework for multi-class prediction of secreted proteins in Gram-negative bacteria. Research, 6:0258. 

Zhang J, Guan J, Wang M, Li G, Djordjevic M, Tai C, Wang H, Deng Z, Chen Z*, Ou HY* (2023) SecReT6 update: a comprehensive resource of bacterial Type VI Secretion Systems. SCIENCE CHINA Life Sciences, 66(3):626-634.

Liu Z, Guan J, Chen Z, Tai C, Deng Z, Chao Y*, Ou HY* (2023) CpxR promotes the carbapenem antibiotic resistance of Klebsiella pneumoniae by directly regulating the expression and the dissemination of bla_KPC on the IncFII conjugative plasmid. Emerging Microbes & Infections, 12(2):2256427. 

Zhang J#, Xu Y#, Wang M#, Li X, Liu Z, Kuang D, Deng Z, Ou HY*, Qu J* (2023) Mobilizable plasmids drive the spread of antimicrobial resistance genes and virulence genes in Klebsiella pneumoniae. Genome Medicine, 15(1):106. 

Li P, Goh YX, Wang M, Ilic B, Tai C, Deng Z, Djordjevic M, Ou HY* (2023) Antibiotic-induced degradation of antitoxin enhances the transcription of acetyltransferase-type toxin-antitoxin operon. Journal of Antimicrobial Chemotherapy, 78(4):1066-1075.