Publications
T cell differentiation
Plotkin AL, Mullins GN, Green WD, Shi H, Chung HK, Stanley N, Milner JJ Optimal transport fate mapping resolves T cell differentiation dynamics across tissues bioRxiv 2026 doi:10.64898/2026.02.24.707057
Schiliró D, Tunbridge M, Brown N, Lopez J, Tollison T, Smith E, Ladowski J, Martinino A, Hu M, Schwalb A, Yoon J, Belloni R, O’Neil J, Robinson L, Schachter A, Babcock G, Oldach D, Peng X, Chung HK*, Knechtle S*, Kwun J* Selective Impact on Regulatory T cell with Sustained Functional Phenotype by the IL-2 Mutein VIS171 in a Nonhuman Primate Model American Journal of Transplantation 2026 doi: 10.1016/j.ajt.2026.02.012 *co-corresponding
Pratt BM, Mullins GN, Brown N, Green WD, Modliszewski J, Xie F, van Rooyen L, Zhabotynsky V, Jambor AN, Cannon G, Green JM, Kennedy A, Alicea Paunto C del M, Shi H, Merritt E, Egawa T, Somasundaram A, Wang W, Thaxton JE, Dotti G, Chung HK*, Milner JJ* Latent Regulatory Programs Generate Synthetic T Cell States with Enhanced Therapeutic Potential bioRxiv 2026 doi: 10.64898/2026.01.07.698190 *co-corresponding
Chung HK*, Liu C, Battu A, Jambor AN, Pratt BM, Xie F, Riesenberg BP, Sun M, Casillas E, Ye Q, Joo D, Green J, Syed Z, Brown NJ, Smith M, … Thaxton JE, Milner JJ, Kaech SM*, Wang W*. Atlas-Guided Discovery of Transcription Factors for T Cell Programming. Nature 2026 doi: 10.1038/s41586-025-09989-7 (2026). *co-corresponding
Pauneto, C., … Chung, H. K., Milner, J. J., Moschos, J. S., Wiseman, R. L., Thaxton, J. E. Intra-tumoral hypoxia promotes CD8+ T cell dysfunction via chronic activation of integrated stress response transcription factor ATF4 Immunity 2025 doi.org/10.1016/j.immuni.2025.09.003
Ma S, Dahabieh MS, Mann TH, Zhao S, McDonald B, Song WS, Chung HK, Farsakoglu Y, Garcia-Rivera L, Hoffmann FA, Xu S, Du VY, Chen D, Furgiuele J, LaPorta MA, Jacobs E, DeCamp LM, Oswald BM, Sheldon RD, Ellis AE, Liu L, He P, Wang Y, Jang C, Jones RG, Kaech SM. Nutrient-driven histone code determines exhausted CD8+ T cell fates. Science 2025 Feb 7;387(6734):eadj3020. doi: 10.1126/science.adj3020. Epub 2025 Feb 7. PMID: 39666821.
Varanasi SK, Chen D, Liu Y, Johnson MA, Miller CM, Ganguly S, Lande K, LaPorta MA, Hoffmann FA, Mann TH, Teneche MG, Casillas E, Mangalhara KC, Mathew V, Sun M, Jensen IJ, Farsakoglu Y, Chen T, Parisi B, Deota S, Havas A, Lee J, Chung HK, Schietinger A, Panda S, Williams AE, Farber DL, Dhar D, Adams PD, Feng GS, Shadel GS, Sundrud MS, Kaech SM. Bile acid synthesis impedes tumor-specific T cell responses during liver cancer. Science 2025 Jan 10;387(6730):192-201. doi: 10.1126/science.adl4100. Epub 2025 Jan 9. PMID: 39787217.
Chen D, Varanasi SK, Hara T, Traina K, Sun M, McDonald B, Farsakoglu Y, Clanton J, Xu S, Garcia-Rivera L, Mann TH, Du V, Chung HK, Xu Z, Tripple V, Casillas E, Ma S, O’Connor C, Yang Q, Zheng Y, Hunter T, Lemke G, Kaech SM. CTLA-4 blockade induces a microglia-Th1 cell partnership that stimulates microglia phagocytosis and anti-tumor function in glioblastoma. Immunity 2023 Sep 12;56(9):2086-2104.e8. doi: 10.1016/j.immuni.2023.07.015. Epub 2023 Aug 11. PMID: 37572655; PMCID: PMC11800830.
Kasmani MY, Zander R, Chung HK, Chen Y, Khatun A, Damo M, Topchyan P, Johnson KE, Levashova D, Burns R, Lorenz UM, Tarakanova VL, Joshi NS, Kaech SM, Cui W. Clonal lineage tracing reveals mechanisms skewing CD8+ T cell fate decisions in chronic infection. Journal of Experimental Medicine 2023 Jan 2;220(1):e20220679. doi: 10.1084/jem.20220679. Epub 2022 Oct 31. PMID: 36315049; PMCID: PMC9623343.
Chung HK, McDonald B, Kaech SM. The architectural design of CD8+ T cell responses in acute and chronic infection: Parallel structures with divergent fates. Journal of Experimental Medicine 2021 Apr 5;218(4):e20201730. doi: 10.1084/jem.20201730. PMID: 33755719; PMCID: PMC7992501.
Synthetic toolkit development
Longwei Liu, L., … Chung, H. K., Fan, R., Wang, Y. Engineering Sonogenetic EchoBack-CAR T cells. Cell 2025 Mar 23:S0092-8674(25)00271-5. doi: 10.1016/j.cell.2025.02.035
Chung HK, Lin MZ. On the cutting edge: protease-based methods for sensing and controlling cell biology. Nature Methods 2020 Sep;17(9):885-896. doi: 10.1038/s41592-020-0891-z. Epub 2020 Jul 13. PMID: 32661424.
Chung HK, Zou X, Bajar BT, Brand VR, Huo Y, Alcudia JF, Ferrell JE Jr, Lin MZ. A compact synthetic pathway rewires cancer signaling to therapeutic effector release. Science 2019 May 3;364(6439):eaat6982. doi: 10.1126/science.aat6982. PMID: 31048459; PMCID: PMC7053279.
Zhou XX, Zou X, Chung HK, Gao Y, Liu Y, Qi LS, Lin MZ. A Single-Chain Photoswitchable CRISPR-Cas9 Architecture for Light-Inducible Gene Editing and Transcription. ACS Chem Biology 2018 Feb 16;13(2):443-448. doi: 10.1021/acschembio.7b00603. Epub 2017 Sep 29. PMID: 28938067; PMCID: PMC5820652.
Chung HK, Jacobs CL, Huo Y, Yang J, Krumm SA, Plemper RK, Tsien RY, Lin MZ. Tunable and reversible drug control of protein production via a self-excising degron. Nature Chemical Biology 2015 Sep;11(9):713-20. doi: 10.1038/nchembio.1869. Epub 2015 Jul 27. PMID: 26214256; PMCID: PMC4543534.
Yan D, Weisshaar M, Lamb K, Chung HK, Lin MZ, Plemper RK. Replication-Competent Influenza Virus and Respiratory Syncytial Virus Luciferase Reporter Strains Engineered for Co-Infections Identify Antiviral Compounds in Combination Screens. Biochemistry 2015 Sep 15;54(36):5589-604. doi: 10.1021/acs.biochem.5b00623. Epub 2015 Sep 1. PMID: 26307636; PMCID: PMC4719150.
Zhou XX, Chung HK, Lam AJ, Lin MZ. Optical control of protein activity by fluorescent protein domains. Science 2012 Nov 9;338(6108):810-4. doi: 10.1126/science.1226854. PMID: 23139335; PMCID: PMC3702057.