{"id":271,"date":"2023-12-08T13:14:09","date_gmt":"2023-12-08T21:14:09","guid":{"rendered":"https:\/\/dornsife.usc.edu\/zhang-lab\/?page_id=271"},"modified":"2025-12-15T13:56:37","modified_gmt":"2025-12-15T21:56:37","slug":"publications","status":"publish","type":"page","link":"https:\/\/dornsife.usc.edu\/zhang-lab\/publications\/","title":{"rendered":"Publications"},"content":{"rendered":"\n\n \n \n\n\n\n\n\n\n\n
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Ngo, C., Fried, W., Aliyari, S., Feng, J., Zhang, S., Yang, H., Feng, P., Cheng, G., Chen, X.J. &\u00a0Zhang, C.\u00a0Alkyne as a Latent Warhead to Covalently Target SARS-CoV-2 Main Protease<\/a>.\u00a0\u00a0J. Med. Chem.<\/i>\u00a02023<\/strong>.<\/p>\n

Kim, M.J., Li, Y., Junge, J.A., Kim, N.K., Fraser, S.E. &\u00a0Zhang, C.\u00a0Development of highly fluorogenic styrene probes for visualizing RNA in live cells<\/a>.\u00a0\u00a0ACS Chem. Bio.<\/i>\u00a02023<\/strong>, 18, (7), 1523-1533.<\/p>\n

Ngo, C., Ekanayake, A. &\u00a0Zhang, C.\u00a0Identification of Covalent Ligands – from Single Targets to Whole Proteome<\/a>.\u00a0\u00a0I. J. Chem.<\/i>\u00a02023<\/strong>. 63, (3-4), e202200105.<\/p>\n

Miranda, R.R. &\u00a0Zhang, C.\u00a0Reactivity-Based Chemical-Genetic Study of Protein Kinases<\/a>.\u00a0RSC Med. Chem.<\/i>\u00a02022,<\/strong> 13, (7), 783-797.<\/p>\n

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.,\u00a0Zhang, C.\u00a0& Feng, P. SARS-CoV-2 couples evasion of inflammatory response to activated nucleotide synthesis<\/a>.\u00a0PNAS<\/i>\u00a02022<\/strong>, 119, (26), e2122897119.<\/p>\n

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.,\u00a0Zhang, C.\u00a0& Feng, P. SARS-CoV-2 Nsp5 Demonstrates Two Distinct Mechanisms Targeting RIG-I and MAVS To Evade the Innate Immune Response<\/a>.\u00a0mBio.\u00a0<\/i>2021<\/strong>, e0233521.<\/i><\/p>\n

Parker, N., Laychur, A., Sukwani, M., Orwig, K.E., Oatley, J.M.,\u00a0Zhang, 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<\/a>.\u00a0Stem Cell Reports<\/i>.\u00a02021<\/strong>, 16, (3), 597-609.<\/p>\n

Feng, J.J. &\u00a0Zhang, C.\u00a0A two-pronged attack<\/a>.\u00a0Nat. Chem. Biol.<\/i>\u00a02020<\/strong>, 16, (11), 1154-1155.\u00a0Link<\/a><\/p>\n

Miranda, R.R., Fu, Y., Chen, X., Perino, J., Cao, P., Carpten, J., Chen, Y.,\u00a0Zhang, C.\u00a0Development of a Potent and Specific FGFR4 Inhibitor for the Treatment of Hepatocellular Carcinoma<\/a>.\u00a0J Med. Chem.<\/i>\u00a02020,<\/strong> 63, (20), 11484-11497.<\/p>\n

Ni, F., Ekanayake, A., Espinosa B., Yu, C., Sanders, J. N., Perino, J., Houk, K. N., and\u00a0Zhang, C., Synthesis and Target Identification of a Novel Electrophilic Warhead, 2-Chloromethylquinoline<\/a>.\u00a0Biochemistry<\/i>.\u00a02019<\/strong>, 58, (24), 2715-2719.\u00a0<\/i><\/p>\n

Assadieskandar, A., Yu, C., Maisonneuve, P., Liu, X., Chen, Y. C., Sicheri, F., and\u00a0Zhang, C., Rigidification Dramatically Improves Inhibitor Selectivity for RAF Kinases<\/a>.\u00a0ACS Med. Chem. Lett.\u00a0<\/i>2019<\/strong>, 10, 1074\u22121080.<\/p>\n

Assadieskandar, A., Yu, C., Maisonneuve, P., Liu, X., Chen, Y. C., Prakash, G.K.S., \u00a0Kurinov, I., Sicheri, F., Zhang, C., Effects of Rigidity on the Selectivity of Protein Kinase Inhibitors<\/a>.\u00a0European Journal of Medicinal Chemistry<\/em>.\u00a02018<\/strong>, 146, 519-528.<\/p>\n

Chen, X., Wang, R., Liu, X., Zhou, T., Yang, Y., Perez, A., Assadieskandar, A., Chen, Y. C., Zhang, C., and Ying, Q. L., \u00a0A Chemical-Genetic Approach Reveals Distinct Roles of GSK3\u03b1 and GSK3\u03b2 in Regulating Embryonic Stem Cell Fate<\/a>.\u00a0Developmental\u00a0<\/em>Cell.\u00a0<\/em>2017<\/strong>,\u00a0<\/em>43, (5), 563-76.<\/p>\n

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 \u03b1,\u03b2-halomethylene Analogues by Protein Kinases<\/a>.\u00a0Journal of the American Chemical Society<\/em>.\u00a02017<\/strong>, 139, (23), 7701-04.<\/p>\n

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<\/a>.\u00a0Nature\u00a0<\/em>2017<\/strong>, 545, (7654), 311-16.<\/p>\n

Kung, A., Schimpl, M., Ekanayake, A.,\u00a0Chen, Y. C., Overman, R.\u00a0& Zhang, C.,\u00a0A Chemical-Genetic Approach to Generate Selective Covalent Inhibitors of Protein Kinases<\/a>.\u00a0ACS Chemical Biology<\/em>.\u00a02017<\/strong>, 12, (6), 1499-503.<\/p>\n

Chen, Y. C., Backus, K. M., Merkulova, M., Yang, C., Brown, D., Cravatt, B. F.\u00a0& Zhang, C., Covalent Modulators of the Vacuolar ATPase<\/a>.\u00a0Journal of the American Chemical Society<\/em>.\u00a02017<\/strong>. 139, (2), 639-42.<\/p>\n

Zhao, J., Zheng, Y., Xu, S., Chen, J., Shen, G., Yu, C., Knipe, D., Yuan, W., Peng, J., Xu, W., Zhang, C., Xia, Z.\u00a0& Feng, P., A Viral Deamidase Targets the Helicase Domain of RIG-I to Block RNA-Induced Activation<\/a>.\u00a0Cell Host Microbe<\/em>.\u00a02016<\/strong>, 20,(6), 770-784.<\/p>\n

Kung, A., Chen, Y. C., Schimpl, M., Ni, F., Zhu, J., Turner, M., Molina, H., Overman, R.\u00a0& Zhang, C., Development of Specific, Irreversible Inhibitors for a Receptor Tyrosine Kinase EphB3<\/a>.\u00a0Journal of the American Chemical Society<\/em>.\u00a02016<\/strong>, 138(33):10554-60.<\/p>\n

Chen, Y. C. and Zhang, C., A method for pulling down and identifying cellular targets of covalent kinase inhibitors<\/a>.\u00a0Genes & Cancer<\/em>.\u00a02016<\/strong>, 7, (5-6), 148-53.<\/p>\n

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<\/a>” \u00a0Journal of Medicinal Chemistry.\u00a0<\/em>2015<\/strong>,\u00a058, (23), 9228-37.\u00a0Link<\/a><\/p>\n

Hwang, C., Kung, A., Kashemirov, B., Zhang, C. & McKenna, C., “5\u2019-\u03b2,\u03b3-CHF-ATP Diastereomers: Synthesis and Fluorine-Mediated Selective Binding by c-Src Protein Kinase<\/a>” \u00a0Organic Letters. \u00a0<\/em>2015<\/strong>, 17, (7), 1624-7.<\/p>\n

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<\/a>.\u00a0Angew. Chem. Int. Ed. Engl.<\/em>\u00a02014<\/strong>, 53, (42), 11223-7.<\/p>\n

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<\/a>.\u00a0Chemical Science<\/em>\u00a0\u00a0<\/em>2014<\/strong>, 5, (2), 567-74.<\/p>\n

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<\/a>.\u00a0ACS Chem. Biol.<\/em>\u00a0\u00a0<\/em>2013<\/strong>, 8, (9), 1931-8.<\/p>\n<\/div>\n

\n

\u00a0<\/em><\/p>\n

Selected Previous Publications:<\/em><\/strong><\/h2>\n

Poulikakos, P.I.;\u00a0Zhang, C.<\/em>; Bollag, G.; Shokat, K.M. & Rosen, N. \u00a0RAF inhibitors transactivate RAF dimers and ERK signalling in cells with wild-type BRAF.\u00a0Nature\u00a0<\/em>2010<\/strong>, 464(7287), 427-30.<\/p>\n

Lourido, S., Shuman, J.,\u00a0Zhang, C.<\/em>, Shokat, K.M., Hui, R. & Sibley, L.D. \u00a0Calcium-dependent protein kinase 1 is an essential regulator of exocytosis in Toxoplasma.\u00a0Nature\u00a0<\/em>2010<\/strong>, 465(7296), 359-62.<\/p>\n

Korennykh, A.V., Egea, P.F., Korostelev, A.A., Finer-Moore, J.,\u00a0Zhang, C.<\/em>, Shokat, K.M., Stroud, R.M. & Walter, P. \u00a0The unfolded protein response signals through high-order assembly of Ire1.\u00a0Nature\u00a0<\/em>2009<\/strong>, 457(7230), 687-93.<\/p>\n

Zhang, C.<\/em>\u00a0& Shokat, K.M. \u00a0Enhanced selectivity for inhibition of analog-sensitive protein kinases through scaffold optimization.\u00a0Tetrahedron\u00a0<\/em>2007<\/strong>, 63(26), 5832-5838.<\/p>\n

Zhang, C.<\/em>, Kenski, D.M., Paulson, J.L., Bonshtien, A., Sessa, G., Cross, J.V., Templeton, D.J. & Shokat, K.M. \u00a0A second-site suppressor strategy for chemical genetic analysis of diverse protein kinases.\u00a0Nature Methods\u00a0<\/em>2005<\/strong>, 2(6), 435-41.<\/p>\n

Cohen, M. S.;\u00a0Zhang, C.<\/em>; Shokat, K. M.; Taunton, J. Structural bioinformatics-based design of selective, irreversible kinase inhibitors.\u00a0Science\u00a0<\/em>2005<\/strong>, 308(5726), 1318-21.<\/p>\n

Papa, F.R.,\u00a0Zhang, C.<\/em>, Shokat, K. & Walter, P. \u00a0Bypassing a kinase activity with an ATP-competitive drug.\u00a0Science\u00a0<\/em>2003<\/strong>, 302(5650), 1533-7.<\/p>\n<\/div>\n\n\n\n<\/div>\n\n\n <\/div><\/div>\n\n\n \n \n \n\n\n\n\n\n\n\n

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\n Contact\n <\/h2>\n\n\n<\/div>\n \n \n <\/div>\n \n \n
\n\n \n
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Chao Zhang, Ph.D.<\/h3>\n \n \n
\n\n \n

Associate Professor<\/em>
\nDepartment of Chemistry & Loker Hydrocarbon Research Institute
\nUniversity of Southern California
\n3430 S. Vermont Ave, TRF 114A
\nLos Angeles, CA 90089<\/p>\n\n\n\n<\/div>\n \n

\n (213) 740 – 7040<\/a>\n <\/div>\n \n
\n zhang.chao@usc.edu<\/a>\n <\/div>\n \n <\/div>\n \n <\/div>\n\n \n \n \n <\/div>\n\n\n <\/div><\/div>\n","protected":false},"excerpt":{"rendered":"","protected":false},"author":17,"featured_media":37,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_acf_changed":false,"footnotes":""},"class_list":["post-271","page","type-page","status-publish","has-post-thumbnail","hentry"],"acf":[],"yoast_head":"\nPublications - Zhang Lab @ USC<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/dornsife.usc.edu\/zhang-lab\/publications\/\" \/>\n<meta property=\"og:locale\" content=\"en_US\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"Publications - Zhang Lab @ USC\" \/>\n<meta property=\"og:url\" content=\"https:\/\/dornsife.usc.edu\/zhang-lab\/publications\/\" \/>\n<meta property=\"og:site_name\" content=\"Zhang Lab @ USC\" \/>\n<meta property=\"article:modified_time\" content=\"2025-12-15T21:56:37+00:00\" \/>\n<meta property=\"og:image\" content=\"https:\/\/dornsife.usc.edu\/zhang-lab\/wp-content\/uploads\/sites\/382\/2022\/11\/featured-image-1.jpg\" \/>\n\t<meta property=\"og:image:width\" content=\"2000\" \/>\n\t<meta property=\"og:image:height\" content=\"1150\" \/>\n\t<meta property=\"og:image:type\" content=\"image\/jpeg\" \/>\n<meta name=\"twitter:card\" content=\"summary_large_image\" \/>\n<script type=\"application\/ld+json\" class=\"yoast-schema-graph\">{\"@context\":\"https:\/\/schema.org\",\"@graph\":[{\"@type\":\"WebPage\",\"@id\":\"https:\/\/dornsife.usc.edu\/zhang-lab\/publications\/\",\"url\":\"https:\/\/dornsife.usc.edu\/zhang-lab\/publications\/\",\"name\":\"Publications - 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