Publications

Ngo, C., Fried, W., Aliyari, S., Feng, J., Zhang, S., Yang, H., Feng, P., Cheng, G., Chen, X.J. & Zhang, C. Alkyne as a Latent Warhead to Covalently Target SARS-CoV-2 Main Protease.  J. Med. Chem. 2023.

Kim, M.J., Li, Y., Junge, J.A., Kim, N.K., Fraser, S.E. & Zhang, C. Development of highly fluorogenic styrene probes for visualizing RNA in live cells.  ACS Chem. Bio. 2023, 18, (7), 1523-1533.

Ngo, C., Ekanayake, A. & Zhang, C. Identification of Covalent Ligands – from Single Targets to Whole Proteome.  I. J. Chem. 2023. 63, (3-4), e202200105.

Miranda, R.R. & Zhang, C. Reactivity-Based Chemical-Genetic Study of Protein Kinases. RSC Med. Chem. 2022, 13, (7), 783-797.

Qin, C., Rao, Y., Yuan, H., Wang, T.Y., Zhao, J., Espinosa, B., Liu, Y., Zhang, S., Savas, A.C., Liu, Q., Zarinfar, M., Rice, S., Henley, J., Comai, L., Graham, N.A., Chen, C., Zhang, C. & Feng, P. SARS-CoV-2 couples evasion of inflammatory response to activated nucleotide synthesis. PNAS 2022, 119, (26), e2122897119.

Liu, Y., Qin, C., Rao, Y., Ngo, C., Feng, J.J., Zhao, J., Zhang, S., Wang, T.Y., Carriere, J., Savas, A.C., Zarinfar, M., Rice, S., Yang, H., Yuan, W., Camarero, J.A., Yu, J., Chen, X.S., Zhang, C. & Feng, P. SARS-CoV-2 Nsp5 Demonstrates Two Distinct Mechanisms Targeting RIG-I and MAVS To Evade the Innate Immune Response. mBio. 2021, e0233521.

Parker, N., Laychur, A., Sukwani, M., Orwig, K.E., Oatley, J.M., Zhang, C., Rutaganira, F.U., Shokat, K., Wright, W.W. Spermatogonial Stem Cell Numbers Are Reduced by Transient Inhibition of GDNF Signaling but Restored by Self-Renewing Replication when Signaling Resumes. Stem Cell Reports. 2021, 16, (3), 597-609.

Feng, J.J. & Zhang, C. A two-pronged attack. Nat. Chem. Biol. 2020, 16, (11), 1154-1155. Link

Miranda, R.R., Fu, Y., Chen, X., Perino, J., Cao, P., Carpten, J., Chen, Y., Zhang, C. Development of a Potent and Specific FGFR4 Inhibitor for the Treatment of Hepatocellular Carcinoma. J Med. Chem. 2020, 63, (20), 11484-11497.

Ni, F., Ekanayake, A., Espinosa B., Yu, C., Sanders, J. N., Perino, J., Houk, K. N., and Zhang, C., Synthesis and Target Identification of a Novel Electrophilic Warhead, 2-Chloromethylquinoline. Biochemistry. 2019, 58, (24), 2715-2719. 

Assadieskandar, A., Yu, C., Maisonneuve, P., Liu, X., Chen, Y. C., Sicheri, F., and Zhang, C., Rigidification Dramatically Improves Inhibitor Selectivity for RAF Kinases. ACS Med. Chem. Lett. 2019, 10, 1074−1080.

Assadieskandar, A., Yu, C., Maisonneuve, P., Liu, X., Chen, Y. C., Prakash, G.K.S.,  Kurinov, I., Sicheri, F., Zhang, C., Effects of Rigidity on the Selectivity of Protein Kinase Inhibitors. European Journal of Medicinal Chemistry. 2018, 146, 519-528.

Chen, X., Wang, R., Liu, X., Zhou, T., Yang, Y., Perez, A., Assadieskandar, A., Chen, Y. C., Zhang, C., and Ying, Q. L.,  A Chemical-Genetic Approach Reveals Distinct Roles of GSK3α and GSK3β in Regulating Embryonic Stem Cell Fate. Developmental Cell. 2017, 43, (5), 563-76.

Ni, F., Kung, A., Duan, Y., Shah, V., Amador, C., Guo, M., Fan, X., Chen, L., Chen, Y., McKenna, C. E., and Zhang, C., Remarkably Stereospecific Utilization of ATP α,β-halomethylene Analogues by Protein Kinases. Journal of the American Chemical Society. 2017, 139, (23), 7701-04.

Liu, K., Niu, Y., Konishi, M., Wu, F., Du, H., Chung, H. S., Li, L., Boudsocq, M., McCormack, M., Maekawa, S., Ishida, T., Zhang, C., Shokat, K. M., Yanagisawa, S., and Sheen, J. Discovery of nitrate-CPK-NLP signalling in central nutrient-growth networks. Nature 2017, 545, (7654), 311-16.

Kung, A., Schimpl, M., Ekanayake, A., Chen, Y. C., Overman, R. & Zhang, C., A Chemical-Genetic Approach to Generate Selective Covalent Inhibitors of Protein Kinases. ACS Chemical Biology. 2017, 12, (6), 1499-503.

Chen, Y. C., Backus, K. M., Merkulova, M., Yang, C., Brown, D., Cravatt, B. F. & Zhang, C., Covalent Modulators of the Vacuolar ATPase. Journal of the American Chemical Society. 2017. 139, (2), 639-42.

Zhao, J., Zheng, Y., Xu, S., Chen, J., Shen, G., Yu, C., Knipe, D., Yuan, W., Peng, J., Xu, W., Zhang, C., Xia, Z. & Feng, P., A Viral Deamidase Targets the Helicase Domain of RIG-I to Block RNA-Induced Activation. Cell Host Microbe. 2016, 20,(6), 770-784.

Kung, A., Chen, Y. C., Schimpl, M., Ni, F., Zhu, J., Turner, M., Molina, H., Overman, R. & Zhang, C., Development of Specific, Irreversible Inhibitors for a Receptor Tyrosine Kinase EphB3. Journal of the American Chemical Society. 2016, 138(33):10554-60.

Chen, Y. C. and Zhang, C., A method for pulling down and identifying cellular targets of covalent kinase inhibitors. Genes & Cancer. 2016, 7, (5-6), 148-53.

Liu, X., Kung, A., Malinoski, B., Prakash, G.K.S. & Zhang, C., “Development of Alkyne-Containing Pyrazolopyrimidines to Overcome Drug Resistance of Bcr-Abl Kinase”  Journal of Medicinal Chemistry. 2015, 58, (23), 9228-37. Link

Hwang, C., Kung, A., Kashemirov, B., Zhang, C. & McKenna, C., “5’-β,γ-CHF-ATP Diastereomers: Synthesis and Fluorine-Mediated Selective Binding by c-Src Protein Kinase”  Organic Letters.  2015, 17, (7), 1624-7.

Xu, L., Chen, Y.C., Chong, J., Fin, A., McCoy, L.S., Xu, J., Zhang, C., and Wang, D., Pyrene-Based Quantitative Detection of the 5-Formylcytosine Loci Symmetry in the CpG Duplex Content during TET-Dependent Demethylation. Angew. Chem. Int. Ed. Engl. 2014, 53, (42), 11223-7.

Xu, L., Chen, Y. C., Nakajima, S., Chong, J., Wang, L., Lan, L., Zhang, C., and Wang, D., A chemical probe targets DNA 5-formylcytosine sites and inhibits TDG excision, polymerases bypass, and gene expression. Chemical Science  2014, 5, (2), 567-74.

Zhang, C., Lopez, M. S., Dar, A. C., Ladow, E., Finkbeiner, S., Yun, C. H., Eck, M. J., and Shokat, K. M., Structure-Guided Inhibitor Design Expands the Scope of Analog-Sensitive Kinase Technology. ACS Chem. Biol.  2013, 8, (9), 1931-8.

Selected Previous Publications:

Poulikakos, P.I.; Zhang, C.; Bollag, G.; Shokat, K.M. & Rosen, N.  RAF inhibitors transactivate RAF dimers and ERK signalling in cells with wild-type BRAF. Nature 2010, 464(7287), 427-30.

Lourido, S., Shuman, J., Zhang, C., Shokat, K.M., Hui, R. & Sibley, L.D.  Calcium-dependent protein kinase 1 is an essential regulator of exocytosis in Toxoplasma. Nature 2010, 465(7296), 359-62.

Korennykh, A.V., Egea, P.F., Korostelev, A.A., Finer-Moore, J., Zhang, C., Shokat, K.M., Stroud, R.M. & Walter, P.  The unfolded protein response signals through high-order assembly of Ire1. Nature 2009, 457(7230), 687-93.

Zhang, C. & Shokat, K.M.  Enhanced selectivity for inhibition of analog-sensitive protein kinases through scaffold optimization. Tetrahedron 2007, 63(26), 5832-5838.

Zhang, C., Kenski, D.M., Paulson, J.L., Bonshtien, A., Sessa, G., Cross, J.V., Templeton, D.J. & Shokat, K.M.  A second-site suppressor strategy for chemical genetic analysis of diverse protein kinases. Nature Methods 2005, 2(6), 435-41.

Cohen, M. S.; Zhang, C.; Shokat, K. M.; Taunton, J. Structural bioinformatics-based design of selective, irreversible kinase inhibitors. Science 2005, 308(5726), 1318-21.

Papa, F.R., Zhang, C., Shokat, K. & Walter, P.  Bypassing a kinase activity with an ATP-competitive drug. Science 2003, 302(5650), 1533-7.