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  1. M-DeepAssembly: enhanced DeepAssembly based on multi-objective multi-domain protein conformation sampling.
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    Journal: BMC Bioinformatics. 2025 May 05;26(1)
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  2. af3cli: Streamlining AlphaFold3 Input Preparation.
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    Journal: J Chem Inf Model. 2025 Apr 28;65(8)
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  3. Fitting Atomic Structures into Cryo-EM Maps by Coupling Deep Learning-Enhanced Map Processing with Global-Local Optimization.
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    Journal: J Chem Inf Model. 2025 Apr 14;65(7)
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  4. Conformational ensembles for protein structure prediction.
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    Journal: Sci Rep. 2025 Mar 12;15(1)
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  5. Severe deviation in protein fold prediction by advanced AI: a case study.
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    Journal: Sci Rep. 2025 Feb 08;15(1)
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  6. GDFold2: A fast and parallelizable protein folding environment with freely defined objective functions.
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    Journal: Protein Sci. 2025 Feb;34(2)
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  7. MAI-TargetFisher: A proteome-wide drug target prediction method synergetically enhanced by artificial intelligence and physical modeling.
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    Journal: Acta Pharmacol Sin. 2025 May;46(5)
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  8. Porter 6: Protein Secondary Structure Prediction by Leveraging Pre-Trained Language Models (PLMs).
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    Journal: Int J Mol Sci. 2024 Dec 27;26(1)
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  9. Systematic benchmarking of deep-learning methods for tertiary RNA structure prediction.
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    Journal: PLoS Comput Biol. 2024 Dec;20(12)
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  10. Determining structures of RNA conformers using AFM and deep neural networks.
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    Journal: Nature. 2025 Jan;637(8048)
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