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Chem. Sci., 2024, 15, 2792
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An approach for the systematic profiling of drug-induced remodeling of RNA–RBP (RNA-binding protein) interactions

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Profiling protein targets of cellular toxicant exposure

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Proteome-Wide Monitoring of Drug Action in Living Cells Using a Novel Label-Free Solvent-Based Shift Assay

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Molecular & Cellular Proteomics, 2025, 24, 101444
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Recent advances in proteomic strategies for target identification of traditional Chinese medicine

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PELSA-Decipher: A Software Tool for the Processing and Interpretation of Ligand–Protein Interaction Data Sets Acquired by PELSA

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Aryl hydrocarbon receptor-induced activation of AIM2 inflammasome is mediated by MOMP and MPT: A vital therapeutic pathway for inflammation

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Cellular thermal shift assay: an approach to identify and assess protein target engagement

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TIPP: A Novel Iodoacetamide Reaction-Induced Protein Precipitation Approach for Proteome-Wide Ligand-Target Identification

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Anal. Chem., 2026, 98, 1406
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Copper Transporter 1-Mediated Deregulation of Copper Homeostasis Impacts MYC and Oxidative Phosphorylation Pathways and Increases the Sensitivity of Tumor Cells to Complex I Inhibitors

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Integrated Protein Solubility Shift Assays for Comprehensive Drug Target Identification on a Proteome-Wide Scale

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Anal. Chem., 2023, 95, 13779
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Solvent-induced partial cellular fixation decodes proteome-wide drug targets and downstream pathways in living cells

Ting Yu, Yan Wang, Keyun Wang, Zheng Fang, Haiyang Zhu, Xiaolei Zhang, Yanan Li and Mingliang Ye

Nat Commun, 2025, 16
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Sequential denaturation and protein precipitation assay (SDPP) improves the sensitivity for ligand target identification at the proteome level

Yanni Ma, Xiaolei Zhang, Longrun Shi, Jiayang Yan, Keyun Wang and Mingliang Ye

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Target engagement in bacterial and protozoan pathogens: in vitro and cellular assays for drug discovery

Priscila Z. Ramos, Carolina M.C. Catta-Preta and Rafael M. Couñago

Current Opinion in Structural Biology, 2026, 96, 103194
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Chemical proteomics accelerates the target discovery of natural products

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Biochemical Pharmacology, 2024, 230, 116609
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A Chemoproteomic Approach for System-Wide and Site-Specific Uncovering of Functional Protein N-Glycosylation

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J. Am. Chem. Soc., 2025, 147, 24127
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Emerging Target Discovery Strategies Drive the Decoding of Therapeutic Power of Natural Products and Further Drug Development: A Case Study of Celastrol

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A Miniaturized, Automated Proteomic Sample Preparation Platform for High-Throughput Target Deconvolution of Natural Products

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Joint Screening and Identification of Potential Targets of Nitazoxanide by Affinity Chromatography and Label-Free Techniques

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CDT, 2024, 25, 819
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PPIA as a central regulator in a novel cell death pathway activated by iron homeostasis and redox disruption in multiple myeloma

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Thermostability-assisted limited proteolysis-coupled mass spectrometry for capturing drug target proteins and sites

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Peptide-centric local stability assay (PELSA) for sensitive identification of ligand-targeting proteins and binding sites at proteome scale

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Nat Protoc, 2026
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Label-Free Target Discovery Strategy for Natural Active Products

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Application of salt-assisted liquid-liquid extraction in bioanalytical methods

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Polyphenol Tannin‐Induced Protein Precipitation for Drug Target Discovery by Chemical Proteomics

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Probing ligand-induced local stability shifts: A sensitive approach to identify target proteins and binding sites at the proteomic scale

Keyun Wang, Yanan Li, Yanni Ma and Mingliang Ye

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Toxic effects and toxicological mechanisms of chlorinated paraffins: A review for insight into species sensitivity and toxicity difference

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Stability-based approaches in chemoproteomics

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The Introduction of Detergents in Thermal Proteome Profiling Requires Lowering the Applied Temperatures for Efficient Target Protein Identification

Yuying Ye, Kejia Li, Yanni Ma, Xiaolei Zhang, Yanan Li, Ting Yu, Yan Wang and Mingliang Ye

Molecules, 2023, 28, 4859
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A label-free magnetic bead affinity approach for direct target identification of herbal extract: Ganoderma lucidum as a case

Han Li, Bo Peng, Bo Li, Ting Li, Zihan Zhu, Pengfei Tu, Jun Li and Yuelin Song

Analytica Chimica Acta, 2026, 1406, 345518
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Kinome analysis of Madurella mycetomatis identified kinases in the cell wall integrity pathway as novel potential therapeutic drug targets in eumycetoma caused by Madurella mycetomatis

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Ligand Modification-Free Methods for the Profiling of Protein-Environmental Chemical Interactions

Yanan Li, Jiawen Lyu, Yan Wang, Mingliang Ye and Hailin Wang

Chem. Res. Toxicol., 2024, 37, 1
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Profiling the Misfolded Proteome in Human Disease

Vivian C. Onwudiwe and Joseph C. Genereux

Israel Journal of Chemistry, 2024, 64
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A Detergent-Free Grinding Sample Preparation Method Dramatically Enhances PELSA for Mapping Integral Membrane Proteins–Ligand Interaction

Ting Yu, Yan Wang, Yanan Li, Keyun Wang, Haiyang Zhu and Mingliang Ye

Anal. Chem., 2025, 97, 23848
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Identification of the binding proteins of organic acid metabolites by matrix thermal shift assay

Kejia LI, Yuying YE, Xiaolei ZHANG, Jiahua ZHOU, Yanan LI and Mingliang YE