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  1. “A Machine-learning-based Data Analysis Method for Cell-based Selection of DNA-encoded libraries (DELs)” Rui Hou,* Chao Xie, Yuhan Gui, Gang Li, Xiaoyu Li* ChemRxiv 2022, doi: 10.26434/chemrxiv-2022-hg2x8.

  2. “Combining DELs and machine learning for toxicology prediction” Vincent Blay,* Xiaoyu Li, Jacob Gerlach, Fabio Urbina, and Sean Ekins* Drug Discovery Today 2022, 27, 103351-103359.

  3. “In-solution Selection Methods of DNA-encoded Library (DEL)” Yingying Wang, Xiaomin Li, Yahui Cai, Xiaoyu Li,* and Bingbing Shi* Chem. J. Chin. Univ. 2022, doi: 10.7503/cjcu20220438.

  4. Yuhan Gui, Clara Shania Wong, Guixian Zhao, Chao Xie, Hou Rui, Yizhou Li,* Gang Li,* and Xiaoyu Li* “Converting double-stranded DNA-encoded libraries (DELs) to single-stranded libraries for more versatile selections” ACS Omega 2022, 7, 11491-11500.

  5. Bingbing Shi, Yu Zhou* and Xiaoyu Li* “Recent advances in DNA-encoded dynamic libraries” RSC Chem. Biol. 2022, 3, 407-419.

  6. Yiran Huang, Yizhou Li* and Xiaoyu Li* “Strategies for developing DNA-encoded libraries beyond binding assays” Nat. Chem. 2022, 14, 129-140.

  7. Yinan Song and Xiaoyu Li* “Evolution of the Selection Methods of DNA-encoded Chemical Libraries” Acc. Chem. Res. 2021, 54, 3491-3503.

  8. Yu Zhou, Wenyin Shen, Jianzhao Peng, Yuqing Deng, and Xiaoyu Li* “Identification of isoform/domain-selective fragments from the selection of DNA-encoded dynamic library” Bioorg. Med. Chem.  2021, 45, 116328.

  9. Yiran Huang and Xiaoyu Li* “Recent Advances on the Selection Methods of DNA-encoded Libraries” ChemBioChem 2021, 22, 2384-2397.

  10. Yiran Huang, Yuqing Deng, Jianfu Zhang, Ling Meng, and Xiaoyu Li* “Direct ligand screening against membrane proteins on live cells enabled by DNA-programmed affinity labelling” Chem. Commun, 2021, 57, 3769-3772.

  11. Yiran Huang, Ling Meng, Qigui Nie, Yu Zhou, Langdong Chen, Shilian Yang, Yi Man Eva Fung, Xiaomeng Li, Cen Huang, Yan Cao,* Yizhou Li,* and Xiaoyu Li*  “Selection of DNA-encoded Chemical Libraries Against Endogenous Membrane Proteins on Live Cells” Nat. Chem. 2021,  13, 77-88.

  12. Jianfu Zhang, Jianzhao Peng, Yiran Huang, Ling Meng, Qingrong Li, Feng Xiong, and Xiaoyu Li*  “Identification of Histone-deacetylase (HDAC)-associated Proteins with DNA-Programmed Affinity Labeling” Angew. Chem. Int. Ed. 2020,  59, 17525-17532.

  13. Yuqing Deng, Jianzhao Peng, Feng Xiong, Yinan Song, Yu Zhou, Jianfu Zhang, Fong Sang Lam, Chao Xie, Wenyin Shen, Yiran Huang, Ling Meng, and Xiaoyu Li* “Selection of DNA-encoded Dynamic Chemical Libraries for Direct Inhibitor Discovery” Angew. Chem. Int. Ed. 2020,  59, 14965-14972.

  14. Yinan Song, Feng Xiong, Jianzhao Peng, Yi Man Eva Fung, Yiran Huang, and Xiaoyu Li* “Introducing aldehyde functionality to proteins using ligand-directed affinity labeling” Chem.. Commun. 2020,  56, 6134-6137.

  15. Yu Zhou, Jianzhao Peng, Wenyin Shen, and Xiaoyu Li* “Psoralen as an Interstrand DNA Crosslinker in the Selection of DNA-Encoded Dynamic Chemical Library;” Biochem. Biophy. Res. Commun. 2020,  533, 215-222.

  16. Guixian Zhao, Yiran Huang, Yu Zhou, Yizhou Li,* and Xiaoyu Li* “Future challenges with DNA-encoded chemical libraries in the drug discovery domain” Exp. Opin. Drug. Discov. 2019, 14, 735-753.

  17. Bingbing Shi, Yuqing Deng, and Xiaoyu Li* “Polymerase-extension-based selection method for DNA-encoded chemical libraries against non-immobilized protein targets” ACS Combi. Sci. 2019, 21, 345.

  18. Yu Zhou, Chen Li, Jianzhao Peng, Liangxu Xie, Ling Meng, Qingrong Li, Jianfu Zhang, Xiang David Li, Xin Li,* Xuhui Huang,* and Xiaoyu Li* “DNA-encoded dynamic chemical library and its applications in ligand discovery” J. Am. Chem. Soc. 2018, 140, 15859–15867.

  19. Gerald Kolodny,* Xiaoyu Li, and Steven Balk “Addressing cancer chemotherapeutic toxicity, resistance, and heterogeneity: novel theranostic use of dna-encoded small molecule libraries” BioEssays. 2018, 40, 1800057.

  20. Yiran Huang, Wenlu Zhang, Xiaoyu Li* “Detection of protein targets with a single binding epitope using DNA-templated photocrosslinking and strand displacement” Anal. Biochem. 2018, 545, 84-90.

  21. Bingbing Shi, Yuqing Deng, Peng Zhao, Xiaoyu Li* “Selecting DNA-encoded Chemical Library Against Nonimmobilized Proteins Using a “Ligate-Crosslink-Purify” Strategy” Bioconjugate Chem. 2017, 28, 2293-2301.

  22. Dong-Yao Wang, Yan Cao, Le-Yi Zheng, Lang-Dong Chen, Xiao-Fei Chen, Zhan-Ying Hong, Zhen-Yu Zhu, Xiaoyu Li* and Yi-Feng Chai* “Target Identification of Kinase Inhibitor Alisertib (MLN8237) by Using DNA-Programmed Affinity Labeling” Chem. Eur. J. 2017, 23, 10906–10914.

  23. Dongyao Wang,  Yan Cao,  Leyi Zheng,  Diya Lv,  Langdong Chen,  Xinrui Xing,  Zhenyu Zhu,  Xiaoyu Li*  and  Yifeng Chai* “Identification of Annexin A2 as a target protein for plant alkaloid matrine”Chem. Commun. 2017, 53, 5020–5023.

  24. Bingbing Shi, Yu Zhou, Yiran Huang, Jianfu Zhang, and Xiaoyu Li* “Recent advances on the encoding and selection methods of DNA-encoded chemical library” Bioorg. Med. Chem. Lett. 2016, 27, 361–369.

  25. Gang Li, Wenlu Zheng, Zitian Chen, Yu Zhou, Yu Liu, Junrui Yang, Yanyi Huang and Xiaoyu Li* “Design, preparation, and selection of DNA-encoded dynamic libraries” Chem. Sci. 2015, 6, 7097-7104.

  26. Gang Li, Wenlu Zheng, Ying Liu and Xiaoyu Li* “Novel encoding methods for DNA-templated chemical libraries” Curr. Opin. Chem. Biol. 2015, 26, 25-33.

  27. Wenlu Zheng, Gang Li and Xiaoyu Li* “Affinity purification in target identification: the specificity challenge” Arch. Pharm. Res. 2015, 38, 1661-1685.

  28. Ying Liu, Wenlu Zheng, Wan Zhang, Nan Chen, Yang Liu, Li Chen, Xiaozhou Zhou, Xingshuo Chen, Haifeng Zheng and Xiaoyu Li* “Photoaffinity labeling of transcription factors by DNA-templated crosslinking” Chem. Sci. 2015, 6, 745-751.

  29. Xinping Chen, Chunyue Zhao, Xiaolong Li, Tao Wang, Yizhou Li, Cheng Cao, Yuehe Ding, Mengqiu Dong, Lorenzo Finci, Jia-huai Wang,* Xiaoyu Li* and Lei Liu* “Terazosin activated Pgk1 and Hsp90 to promote stress resistance” Nat. Chem. Biol. 2015, 11, 19-25. Highlighted by Nature’s SciBX.

  30. Yi-Chao Huang, Cheng Cao, Xiang-Long Tan, Xiaoyu Li* and Lei Liu* “Facile solid-phase synthesis of PNA-peptide conjugates using pNZ-protected PNA monomers” Org. Chem. Frontiers 2014, 1, 1050-1054.

  31. Peng Zhao, Zitian Chen, Yizhou Li, Dawei Sun, Yuan Gao, Yanyi Huang* and Xiaoyu Li* “Selection of DNA-encoded small molecule libraries against unmodified and non-immobilized protein targets” Angew. Chem. Int. Ed. 2014, 53, 10056-10059. Selected as “hot paper” and the issue’s front cover.

  32. Cheng Cao, Peng Zhao, Ze Li, Zitian Chen, Yanyi Huang, Yu Bai* and Xiaoyu Li* “A DNA-templated synthesis of encoded small molecules by DNA self-assembly” Chem. Commun. 2014, 50, 10997-10999.

  33. Gang Li, Yu Liu, Xuerong Yu and Xiaoyu Li* “Multivalent photoaffinity probe for labeling small molecule binding proteins” Bioconjugate Chem. 2014, 25, 1172-1180.

  34. Yizhou Li, Peng Zhao, Mingda Zhang, Xianyuan Zhao and Xiaoyu Li* “Multistep DNA-templated synthesis using a universal template” J. Am. Chem. Soc. 2013, 135, 17727-17730. Highlighted by “JACS Spotlights”.

  35. Gang Li, Ying Liu, Yu Liu, Li Chen, Siyu Wu, Yang Liu and Xiaoyu Li* “Photoaffinity labeling of small-molecule-binding proteins by DNA-templated chemistry” Angew. Chem. Int. Ed. 2013, 52, 9544-9549. Selected as “hot paper” and highlighted by S. Barluenga and N. Winssinger, “Picture perfect: DNA-templated photoaffinity labeling” Chembiochem 2013, 14, 1927-1928.

  36. Yizhou Li, Mingda Zhang, Chi Zhang and Xiaoyu Li* “Detection of bond formations by DNA-programmed chemical reactions and PCR amplification” Chem. Commun. 2012, 48, 9513-9515.

  37. Chi Zhang, Yizhou Li, Mingda Zhang and Xiaoyu Li* “DNA-directed formation of peptide bond: a model study towards DNA-programmed peptide ligation” Tetrahedron 2012, 68, 5152-5156.


Book chapter.

  1. Yuhan Guo and Xiaoyu Li* “Selection strategies in DNA-Encoded libraries” Topics in Medicinal Chemistry 2022, book chapter, chapter 6, Spring Nature. ISBN: 9780470704660.

  2. Guixian Zhao; Shilian Yang; Xiaoyu Li;* Yizhou Li* “DNA-Encoded Chemical Libraries used for Drug Discovery” Nucleic Acids in Medicinal Chemistry and Chemical Biology: Drug Development and Clinical Applications, 2023, chapter 8, pp 227-275

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