(43) J. Huang et al. A generative model for natural product building block selection. 2024, in preparation.

(42) L. Ge et al. AI-based natural product prediction. 2024, in preparation.

(41) Y. Zhu et al. Antibiotic discovery. 2024, in preparation.

(40) Y. Zhu et al. Antimicrobial peptide discovery. 2024, in preparation.  

(39) Q. Gao et al. AI-based oxidoreductase bioengineering. 2024, in preparation.  

(38) X. Li et al. Antibiotic discovery. 2024, in preparation.  

(37) Y. Wang et al. A Chat-GPT chemistry assistant. 2024, in preparation.  

(36) X. Wang#, H. Zhang#, Q. Gao, L. Ge, J. Huang*, Z. Qin*. Dissecting the evolution of bacterial polyketide ketosynthase using protein language model. 2024, ready to submit.  

(35) X. Huang et al. DNA digital storage. 2024, under review, preprint: https://www.biorxiv.org/content/10.1101/2024.11.04.621825v1

(34) L. Ge et al. A multimodal algorithm for polyketide studies. 2024, under review.  

(33) Q. Gao#, L. Ge#, Y. Wang, Y. Zhu, Y. Liu, H. Zhang*, J. Huang*, Z. Qin*. An explainable few-shot learning model for the directed evolution of antimicrobial peptides. 2024, under review.  

(32) H. Zhang, J. Huang, X. Wang, Z. Gao, S. Meng, H. Li, S. Zhou, S. Wang, S. Wang, X. Yan, X. Yang, X. Huang*, Z. Qin*. Embedding DNA-based natural language in microbes for the benefit of future researchers.  Digital Discovery, 2024, 3, 2377-2383.

(31) X. Wang#, H. Zhang#, J. Li, J. Huang*, Z. Qin*, Dissecting the herbicidal mechanism of microbial natural product lydicamycins using a deep learning-based nonlinear regression model. ACS Omega, 2024, https://doi.org/10.1021/acsomega.4c07971     

(30) H. Zhang*, Y. Wu#, Y. Zhu#, L. Ge, J. Huang*, Z. Qin*. Identification and functional analysis of a serine protease inhibitor using machine learning strategy. International Journal of Biological Macromolecules. 2024, https://doi.org/10.1016/j.ijbiomac.2024.130852  

(29) H. Zhang, Y. Wang, P. Huang, Y. Zhu, X. Li, Z. Chen, Y. Liu, J. Jiang, Y. Gao, J. Huang*, Z. Qin*. Machine learning and genetic algorithm-guided directed evolution for the development of antimicrobial peptides. Journal of Advanced Research, 2024, https://doi.org/10.1016/j.jare.2024.02.016

(28) J. Huang#, Y. Wu#, Q. Gao, X. Li, Y. Zeng, Y. Guo, H. Zhang*, Z. Qin*. Metagenomic exploration of the rhizosphere soil microbial community and their significance in facilitating the development of wild simulated ginseng. Applied Environmental Microbiology, 2024, 90: e0233523 

(27) X. Zhan, X. Li, Y. Zeng, S. Jiang, C. Pan, S. Pan, J. Huang*, H. Zhang*, Z. Qin*. Unlocking the biosynthetic regulation role of polyketide alkaloid lydicamycins. New Journal of Chemistry, 2024, 48, 525-528.

(26) J. Huang#, X. Li#, X. Zhan#, S. Pan, C. Pan, J. Li, S. Fan, L. Zhang, K. Du, Z. Du, J. Zhang, H. Huang, J. Li, H. Zhang*, Z. Qin*. A Streptomyces species from the ginseng rhizosphere exhibits biocontrol potential. Plant Physiology, 2024, 194, 2709-2723.

(25) J. Huang, Q. Gao, Y. Tang, Y. Wu, H. Zhang*, Z. Qin*. A deep learning model for type II polyketide natural product prediction without sequence alignment. Digital Discovery, 2023, 2, 1484-1493.

(24) H. Zhang, X. Li, S. Pan, J. Huang*, Z. Qin*. Dissecting the biosynthesis of the polyketide alkaloid lydicamycin using a complex metabolic network. New Journal of Chemistry, 2023, 47, 12093-12100.

 (23) C. Pan, Y. Zhu, K. Cao, J. Li, S. Wang, J. Zhu, X. Zeng, H. Zhang*, Z. Qin*. Transcriptome, intestinal microbiome and histomorphology profiling of differences in the response of Chinese sea bass (Lateolabrax maculatus) to Aeromonas hydrophila infection. Frontiers in Microbiology, 2023, 14:1103412.  

(22) M. A. Farag*, B. Abib, Z. Qin*, X. Ze, S. E. Ali. Dietary macrominerals: updated review of their role and orchestration in human nutrition throughout the life cycle with sex differences. Current Research in Food Science, 2023, 6, 100450.          

(21) N. Zhou, Z. Wang L. Yang, W. Zhou, Z. Qin, H. Zhang*. Size-dependent toxicological effects of polystyrene microplastics in the shrimp Litopenaeus vannamei using a histomorphology, microbiome, and metabolic approach authorship. Environmental Pollution, 2023, 316, 120635. 

(20) C. Yang#, W. Xie#, H. Zhang#, W. Xie, T. Tian* and Z. Qin*. Recent two-year advances in anti-dengue small-molecule inhibitors. European Journal of Medicinal Chemistry, 2022, 243, 114753. 

(19) T. Tian#, H. Cao#, M. A. Farag, S. Fan, L. Liu, W. Yang, Y. Wang, L. Zou, K. Cheng, M. Wang, X. Ze, J. Simal-Gandara*, C. Yang* and Z. Qin*. Current and potential trends in the bioactive properties and health benefits of Prunus mume Sieb. Et Zucc: A comprehensive review for value maximization. Critical Reviews in Food Science and Nutrition, 2023, 63, 7091-7107.

(18) T. Tian#, W. Xie#, L. Liu, S. Fan, H. Zhang, Z. Qin* and C. Yang*. Industrial application of antimicrobial peptides based on their biological activity and structure-activity relationship. Critical Reviews in Food Science and Nutrition, 2023, 63, 5430-5445.

(17) Y. Wu, Y. Yang, H. Dang, H. Xiao, W. Huang, Z. Jia, X. Zhao, K. Chen, N. Ji, J. Guo, Z. Qin, J. Wang and  J. Zou. Molecular identification of Klebsiella pneumoniae and expression of immune genes in infected spotted gar Lepisosteus oculatus. Fish and Shellfish Immunology, 2021, 119, 220-230.

(16) Z. Qin#, R. Devine#, T. J. Booth, E. H. E. Farrar, M. N. Grayson, M. I. Hutchings and B. Wilkinson. Formicamycin biosynthesis involves a unique reductive ring contraction. Chemical Science, 2020, 11, 8125-8131. 

(15）Z. Qin#, R. Devine#, M. I. Hutchings and B. Wilkinson. A role for antibiotic biosynthesis monooxygenase domain proteins in fidelity control during aromatic polyketide biosynthesis. 2019, Nature Communications, 2019, 10, 3611. 

(14) Z. Qin, J. T. Munnoch, R. Devine, N. A. Holmes, R. F. Seipke, B. Wilkinson and M. I. Hutchings. Formicamycins, antibacterial polyketides produced by Streptomyces formicae isolated from African Tetraponera plant-ants. Chemical Science, 2017, 8, 3218-3227. 

(13) Z. Qin#, X. Wang#, M. E. Rateb, L. A. Ass’ad, M. Jaspars, Z. Deng, Y. Yu and H. Deng. Disruption of a methyltransferase gene in actinomycin G gene cluster in Streptomyces iakyrus increases the production of phenazinomycin. FEMS Microbiology Letters, 2014, 352, 62-68. 

(12) Z. Qin, S. Huang, Y. Yu and H. Deng. Dithiolopyrrolone natural products: isolation, synthesis and biosynthesis. Marine Drugs, 2013, 11, 3970-3997. 

(11) Z. Qin, A. T. Baker, A. Raab, S. Huang, T. H. Wang, Y. Yu, M. Jaspars, C. J. Secombes and H. Deng. The fish pathogen Yersinia ruckeri produces holomycin and uses an RNA methyltransferase for self-resistance. Journal of Biological Chemistry, 2013, 288, 14688-14697. 

(10) Z. Qin, A. Raab, E. Krupp, H. Deng and J. Feldmann. Mining complex bacteria media for all fluorinated compounds made possible by using HPLC coupled parallel to fluorine-specific and molecular specific detection. Journal of Analytical Atomic Spectrometry, 2013, 28, 877-882. 

(9) Z. Qin, D. McNee, H. Gleisner, A. Raab, K. Kyeremeh, M. Jaspars, E. Krupp, H. Deng and J. Feldmann. Fluorine speciation analysis using reverse phase liquid chromatography coupled off-line to continuum source molecular absorption spectrometry (CS-MAS): identification and quantification of novel fluorinated organic compounds in environmental and biological samples. Analytical Chemistry, 2012, 84, 6213-6219. 

(8) R. Devine, H. McDonald, Z. Qin, C. Arnold, K. Noble, G. Chandra, B. Wilkinson and M. I. Huchings. Re-wiring the regulation of the formicamycin biosynthetic gene cluster to enable the development of promising antibacterial compounds. Cell Chemical Biology, 2021, 28, 515-523. 

(7) N. A. Holmes, R. Devine, Z. Qin, R. F. Seipke, B. Wilkinson and M. I. Hutchings. Complete Genome Sequence of Streptomyces formicae KY5, the formicamycin producer. Journal of Biotechnology, 2017, 10, 116-118. 

(6) T. Scott, D. Heine, Z. Qin and B. Wilkinson. An L-threonine:4-nitrophenylacetaldehyde transaldolase is required for L-threo-β-hydroxy-α-amino acid assembly during obafluorin biosynthesis. Nature Communications, 2017, 15935. 

(5) L. Ma, A. Bartholome, M. H. Tong, Z. Qin, Y. Yu, T. Shepherd, K. Kyeremeh, H. Deng and D. O’Hagan. Identification of a fluorometabolite from Streptomyces sp. MA37: (2R3S4S)-5-fluoro-2,3,4-trihydroxypentanoic acid. Chemical Science, 2015, 6, 1414-1419. 

(4) S. Huang, M. H. Tong, Z. Qin, Z. Deng, H. Deng and Y. Yu. Identification and characterization of the biosynthetic gene cluster of thiolutin, a tumor angiogenesis inhibitor, in Saccharothrix algeriensis NRRL B-24137. Anti-Cancer Agent in Medicinal Chemistry, 2014, 15, 277-284. 

(3) H. Deng, L. Ma, N. Bandaranayaka, Z. Qin, G. Mann, K. Kyeremeh, Y. Yu, T. Shepherd, J. H. Naismith and D. O’Hagan. Identification of fluorinases from Streptomyces sp MA37, Norcardia brasiliensis, and Actinoplanes sp N902-109 by genome mining. ChemBioChem, 2014, 15, 364-368. 

(2) X. Wang, J. Tabudravu, M. E. Rateb, K. J. Annand, Z. Qin, M. Jaspars, Z. Deng, Y. Yu and H. Deng. Identification and characterization of the actinomycin G gene cluster in Streptomyces iakyrus. Molecular BioSystems, 2013, 9, 1286-1289. 

(1) S. Huang, Y. Zhao, Z. Qin, X. Wang, M. Onega, L. Chen, J. He, Y. Yu and H. Deng. Identification and heterologous expression of the biosynthetic gene cluster for holomycin produced by Streptomyces clavuligerus. Process Biochemistry, 2011, 46, 811-816.