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Publications

#Represents equal contribution

Focused Ultrasound​

  1. Huang Z, Mitrofan A, Nouraein S, Horak C, Seo JP, Harb M, Jin R, Szablowski JO. Engineering Site-Specific Drugs for Neuroscience.  In revision. bioRxiv, doi: 10.1101/2023.10.12.562069.

  2. Seo JP, Trippett JS, Huang Z, Lee S, Nouraein S, Wang RZ, Szablowski JO. Acoustically targeted measurement of transgene expression in the brain. Science Advances. 7 August 2024.

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Protein Engineering​

  1. Huang Z#, Li Z#, Zhang X#, Dong R, Kang S, Sun L, Fu X, Vaisar D, Watanabe K, Gu L. Creating Red Light-Switchable Protein Dimerization Systems as Genetically Encoded Actuators with High Specificity. ACS Synth. Biol. 2020, 9(12):3322-3333.

  2. Lee S, Nouraein S, Kwon J. J, Huang Z, Wojick JA, Xia B, Corder G, Szablowski O. J. Engineered Serum Markers for Noninvasive Monitoring of Gene Expression in the Brain. Nature Biotechnology. 10 January 2024.

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Drug Design and Discovery

  1. Huang Z#, Zhao J#, Deng W#, Chen Y#, Shang J#, Song K, Zhang L, Wang C, Lu S, Yang X, He B, Min J, Hu H, Tan M, Xu J, Zhang Q, Zhong J, Sun X, Mao Z, Lin H, Xiao M, Chin E, Jiang H, Xu Y, Chen G, Zhang J. Identification of a cellularly active SIRT6 allosteric activator. Nature Chem. Bio. 2018, 14(12):1118-1126.

  2. Hao Q#, Huang Z#, Li Q#, Liu D, Wang P, Wang K, Li J, Cao W, Deng W, Wu K, Su R, Liu Z#, Vadgama J, Wu Y. A novel metabolic reprogramming strategy for the treatment of diabetes-associated breast cancer. Advanced Science. 2022, 9(6):e2102303.

  3. Zhang Q#, Chen Y#, Ni D#, Huang Z#, Wei J, Feng L, Su J, Wei Y, Ning S, Yang X, Zhao M, Qiu Y, Song K, Yu Z, Xu J, Li X, Lin H, Lu S, Zhang J. Targeting a cryptic allosteric site of SIRT6 with small-molecule inhibitors that inhibit the migration of pancreatic cancer cells. Acta Pharm. Sin. B. 2022, 12(2):876-889.

  4. Wei W#, Ma C#, Cao Y#, Yang L#, Huang Z#, Qin D, Chen Y, Liu C, Wang T, Lei H, Yu Y, Huang M, Tong Y, Xu H, Gao F, Zhang J, Wu Y. Identification of H7 as a novel peroxiredoxin I inhibitor to induce differentiation of leukemia cells. Oncotarget. 2016, 7(4):3873-3883.

  5. Chen Y#, Wen D#, Huang Z#, Huang M, Luo Y, Liu B, Lu H, Wu Y, Peng Y, Zhang J. 2-(4-chlorophenyl)-2-oxoethyl 4-benzamidobenzoate derivatives, a novel class of SENP1 Inhibitors: Virtual screening, synthesis and biological evaluation. Bioorg. Med. Chem. Lett. 2012, 22(22):6867-6870.

  6. Wu K, Ge X, Duan X, Li J, Wang K, Chen Q, Huang Z, Zhang W, Wu Y, Li Q. Wip1 phosphatase activator QGC-8-52 specifically sensitizes p53-negative cancer cells to chemotherapy while protecting normal cells. Drug Resist Updat. 2025:79:101196.​​​

  7. Wu K, Yu X, Huang Z, Zhu D, Yi X, Wu YL, Hao Q, Kemp KT, Elshimali Y, Iyer R, Nguyen KT, Zheng S, Chen G, Chen QH, Wang G, Vadgama JV, Wu Y. Targeting of PP2Cδ by a small molecule C23 inhibits high glucose-induced breast cancer progression in vivo. Antioxid. Redox Signal. 2019, 30(17):1983- 1998.

  8. Huang M, Chen Z, Zhang L, Huang Z, Chen Y, Xu J, Zhang J, Shu X. Screening and biological evaluation of a novel STAT3 signaling pathway inhibitor against cancer. Bioorg. Med. Chem. Lett. 2016, 26(21):5172-5176.

  9. Song F, Xia L, Ji P, Tang Y, Huang Z, Zhu L, Zhang J, Wang J, Zhao G, Ge H, Zhang Y, Wang Y. Human dCTP Pyrophosphatase 1 promotes breast cancer cell growth and stemness through modulation on 5-methyl-dCTP metabolism and global hypomethylation. Oncogenesis. 2015, 4:e159.

  10. Tang J, Huang Z, Chen Y, Zhang Z, Liu G, Zhang J. A novel inhibitor of human La protein with anti-HBV activity discovered by structure-based virtual screening and in vitro evaluation. PLoS One. 2012, 7(4):e36363.

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Bioinformatics and Computational Biology

  1. Huang Z#, Zhu L#, Cao Y#, Wu G, Liu X, Chen Y, Wang Q, Shi T, Zhao Y, Wang Y, Li W, Li Y, Chen H, Chen G, Zhang J. ASD: a comprehensive database of allosteric proteins and modulators. Nucleic Acids Res. 2011, 39(Database issue):D663-669.

  2. Huang Z#, Mou L#, Shen Q#, Lu S#, Li C#, Liu X, Wang G, Li S, Geng L, Liu Y, Wu J, Chen G, Zhang J. ASD v2.0: updated content and novel features focusing on allosteric regulation. Nucleic Acids Res. 2014, 42(1):D510-516.

  3. Huang Z#, Jiang H#, Liu X#, Chen Y, Wong J, Wang Q, Huang W, Shi T, Zhang J. HEMD: an integrated tool of human epigenetic enzymes and chemical modulators for therapeutics. PLoS One. 2012, 7(6):e39917.

  4. Shen Q, Wang G, Li S, Liu X, Lu S, Chen Z, Song K, Yan J, Geng L, Huang Z, Huang W, Cheng G, Zhang J. ASD v3.0: unraveling allosteric regulation with structural mechanisms and biological networks. Nucleic Acids Res. 2016, 44(D1):D527-535.

  5. Huang W, Wang G, Shen Q, Liu X, Lu S, Geng L, Huang Z, Zhang J. ASBench: benchmarking sets for allosteric discovery. Bioinformatics. 2015, 31(15):2598-2600.

  6. Huang W, Lu S, Huang Z, Liu X, Mou L, Luo Y, Zhao Y, Liu Y, Chen Z, Hou T, Zhang J. Allosite: a method for predicting allosteric sites. Bioinformatics. 2013, 29(18):2357-2359.

  7. Shi T, Han Y, Li W, Zhao Y, Liu Y, Huang Z, Lu S, Zhang J. Exploring the desumoylation process of SENP1: a study combined MD simulations with QM/MM calculations on SENP1-SUMO1-RanGAP1. J. Chem. Inf. Model. 2013, 53(9):2360-2368.

  8. Li X, Chen Y, Lu S, Huang Z, Liu X, Wang Q, Shi T, Zhang J. Toward an understanding of the sequence and structural basis of allosteric proteins. J. Mol. Graph. Model. 2013, 40:30-39.

  9. Huang M, Lu S, Shi T, Zhao Y, Chen Y, Li X, Liu X, Huang Z, Zhang J. Conformational transition pathway in the activation process of allosteric glucokinase. PLoS One. 2013, 8(2):e55857.

  10. Lu S, Huang Z, Huang W, Liu X, Chen Y, Shi T, Zhang J. How calcium inhibits the magnesium-dependent kinase gsk3β: a molecular simulation study. Proteins. 2013, 81(5):740-753.

  11. Lu S, Huang W, Li X, Huang Z, Liu X, Chen Y, Shi T, Zhang J. Insights into the role of magnesium triad in myo-inositol monophosphatase: metal mechanism, substrate binding, and lithium therapy. J. Chem. Inf. Model. 2012, 52(9):2398-2409.

  12. Wang Q, Zheng M, Huang Z, Liu X, Zhou H, Chen Y, Shi T, Zhang J. Toward understanding the molecular basis for chemical allosteric modulator design. J. Mol. Graph. Model. 2012, 38:324-333.

  13. Duan X, Block E, Li Z, Connelly T, Zhang J, Huang Z, Su X, Pan Y, Wu L, Chi Q, Thomas S, Zhang S, Ma M, Matsunami H, Chen GQ, Zhuang H. Crucial role of copper in detection of metal-coordinating odorants. Proc. Natl. Acad. Sci. U S A. 2012, 109(9):3492-3497.

  14. Liu X, Liu B, Huang Z, Shi T, Chen Y, Zhang J. SPPS: a sequence-based method for predicting probability of protein-protein interaction partners. PLoS One. 2012, 7(1):e30938.

  15. Liu X, Su X, Wang F, Huang Z, Wang Q, Li Z, Zhang R, Wu L, Pan Y, Chen Y, Zhuang H, Chen G, Shi T, Zhang J. ODORactor: a web server for deciphering olfactory coding. Bioinformatics. 2011, 27(16):2302-2303.

  16. Zhao Y, Lu X, Yang CY, Huang Z, Fu W, Hou T, Zhang J. Computational Modeling Toward Understanding Agonist Binding on Dopamine 3. J. Chem. Inf. Model. 2010, 50(9):1633-1643.

 

​Patents​

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  1. Szablowski JO, Huang Z. Site Specific Brain Therapeutics. US Patent, US20250195629A1. Publication date: Jun. 19, 2025.

  2. Gu L, Huang Z, Zhang X. Red light-controlled protein dimerization systems. US Patent, US20230167167A1. Publication date: Jun. 1, 2023. (Licensed out)

  3. Zhang J, Chen Y, Zhang Q, Zhao M, Wei J, Huang Z, Feng L. Compounds with inhibitory activity against SIRT6 deacetylation, SIRT6 inhibitors, and the uses thereof. Chinese patent, CN115043824A. Publication date: Sep. 13, 2022.

  4. Wu Y, Vadgama J, Huang Z, Wu K. Novel MCT4 inhibitors and uses thereof. US Patent, US10919878B2. Publication date: Feb. 16, 2021. (Licensed out)

  5. Zhang J, Huang Z, Chen Y. Small molecule activators of SIRT6 and the uses thereof. Chinese patent, CN109384694A. Publication date: Feb. 26, 2019. (Licensed out)

  6. Zhang J, Chen Y, Huang M, Huang Z. Small molecule inhibitors of STAT3 and the uses thereof. Chinese patent, CN103880707A. Publication date: Jun. 25, 2014.

  7. Zhang J, Cheng J, Huang M, Chen Y, Huang Z, Lu S, Shi T. Small molecule inhibitors of Senp2 and the uses thereof. Chinese patent, CN103877078A. Publication date: Jun. 25, 2014.

© 2024-2025 by Zhimin Huang, Ph.D.

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