Publications

all Publications


Liu, Z., Lee, D.S., Liang, Y., Zheng, Y., Dixon, J.R. Foxp3 orchestrates reorganization of chromatin architecture to establish regulatory T cell identity. (2023) Nature Communications. 14(1):6943. DOI: 10.1038/s41467-023-42647-y

+ expand abstract

Chen, D., Varanasi, S.K., Hara, T., Traina, K., Sun, M., McDonald, B., Farsakoglu, Y., Clanton, J., Xu, S., Garcia-Rivera, L., Mann, T.H., Du, V., Chung, H.K., Xu, Z., Tripple, V., Casillas, E., Ma, S., O’Connor, C., Yang, Q., Zheng, Y., Hunter, T., Lemke, G., Kaech, S.M. CTLA-4 blockade induces CD4 T cell IFNγ-driven microglial phagocytosis and anti-tumor function in glioblastoma. (2023) Immunity. DOI: 10.1016/j.immuni.2023.07.015

+ expand abstract

Liu, Z., Lee, D.S., Liang, Y., Zheng, Y., Dixon, J.R. Foxp3 Orchestrates Reorganization of Chromatin Architecture to Establish Regulatory T Cell Identity. (2023) bioRxiv. DOI: 10.1101/2023.02.22.529589

+ expand abstract

Ma, S., Yang, Q., Chen, N., Zheng, A., Abbasi, N., Wang, G., Patel, P.R., Cho, B.S., Yee, B.A., Zhang, L., Chu, H., Evans, S.M., Yeo, G.W., Zheng, Y., Huang, W.J.M. RNA binding protein DDX5 restricts RORγt T suppressor function to promote intestine inflammation. (2023) Science Advances. 9(5):eadd6165. DOI: 10.1126/sciadv.add6165

+ expand abstract

Fu, T., Li, Y., Oh, T.G., Cayabyab, F., He, N., Tang, Q., Coulter, S., Truitt, M., Medina, P., He, M., Yu, R.T., Atkins, A., Zheng, Y., Liddle, C., Downes, M., Evans, R.M. FXR mediates ILC-intrinsic responses to intestinal inflammation. (2022) Proceedings of the National Academy of Sciences of the United States of America. 119(51):e2213041119. DOI: 10.1073/pnas.2213041119

+ expand abstract

Liu, Z., Hu, X., Liang, Y., Yu, J., Li, H., Shokhirev, M.N., Zheng, Y. Glucocorticoid signaling and regulatory T cells cooperate to maintain the hair-follicle stem-cell niche. (2022) Nature Immunology. DOI: 10.1038/s41590-022-01244-9

+ expand abstract

Choi, J., Oh, T.G., Jung, H., Park, K.Y., Shin, H., Jo, T., Kang, D.S., Chanda, D., Hong, S., Kim, J., Hwang, H., Ji, M., Jung, M., Takashihoji., Matsushima, A., Kim, P., Mun, J.Y., Paik, M.J., Cho, S.J., Lee, I.K., Whitcomb, D.C., Greer, P., Blobner, B., Goodarzi, M.O., Pandol, S.J., Rotter, J.I., Fan, W., Bapat, S.P., Zheng, Y., Liddle, C., Yu, R.T., Atkins, A.R., Downes, M., Yoshihara, E., Evans, R.M., Suh, J.M., . Estrogen-Related Receptor γ maintains pancreatic acinar cell function and identity by regulating cellular metabolism. (2022) Gastroenterology. DOI: 10.1053/j.gastro.2022.04.013

+ expand abstract

Bapat, S.P., Whitty, C., Mowery, C.T., Liang, Y., Yoo, A., Jiang, Z., Peters, M.C., Zhang, L.J., Vogel, I., Zhou, C., Nguyen, V.Q., Li, Z., Chang, C., Zhu, W.S., Hastie, A.T., He, H., Ren, X., Qiu, W., Gayer, S.G., Liu, C., Choi, E.J., Fassett, M., Cohen, J.N., Sturgill, J.L., Crotty Alexander, L.E., Suh, J.M., Liddle, C., Atkins, A.R., Yu, R.T., Downes, M., Liu, S., Nikolajczyk, B.S., Lee, I.K., Guttman-Yassky, E., Ansel, K.M., Woodruff, P.G., Fahy, J.V., Sheppard, D., Gallo, R.L., Ye, C.J., Evans, R.M., Zheng, Y., Marson, A. Obesity alters pathology and treatment response in inflammatory disease. (2022) Nature. 604(7905):337-342. DOI: 10.1038/s41586-022-04536-0

+ expand abstract

Qiu, Z., Zhao, L., Shen, J.Z., Liang, Z., Wu, Q., Yang, K., Min, L., Gimple, R.C., Yang, Q., Bhargava, S., Jin, C., Kim, C., Hinz, D., Dixit, D., Bernatchez, J.A., Prager, B.C., Zhang, G., Dong, Z., Lv, D., Wang, X., Kim, L.J.Y., Zhu, Z., Jones, K.A., Zheng, Y., Wang, X., Siqueira-Neto, J.L., Chavez, L., Fu, X.D., Spruck, C., Rich, J.N. Transcription Elongation Machinery Is a Druggable Dependency and Potentiates Immunotherapy in Glioblastoma Stem Cells. (2021) Cancer Discovery. DOI: 10.1158/2159-8290.CD-20-1848

+ expand abstract

Arnett, A., Moo, K.G., Flynn, K.J., Sundberg, T.B., Johannessen, L., Shamji, A.F., Gray, N.S., Decker, T., Zheng, Y., Gersuk, V.H., Rahman, Z.S., Levy, D.E., Marié, I.J., Linsley, P.S., Xavier, R.J., Khor, B. The CDK8 inhibitor DCA promotes a tolerogenic chemical immunophenotype in CD4 T cells via a novel CDK8-GATA3-FOXP3 pathway. (2021) Molecular and Cellular Biology.:MCB0008521 DOI: 10.1128/MCB.00085-21

+ expand abstract

Loo, C.S., Gatchalian, J., Liang, Y., Leblanc, M., Xie, M., Ho, J., Venkatraghavan, B., Hargreaves, D.C., Zheng, Y. A Genome-wide CRISPR Screen Reveals a Role for the Non-Canonical Nucleosome-Remodeling BAF Complex in Foxp3 Expression and Regulatory T Cell Function. (2020) Immunity. DOI: 10.1016/j.immuni.2020.06.011

+ expand abstract

Hang, S., Paik, D., Yao, L., Kim, E., Jamma, T., Lu, J., Ha, S., Nelson, B.N., Kelly, S.P., Wu, L., Zheng, Y., Longman, R.S., Rastinejad, F., Devlin, A.S., Krout, M.R., Fischbach, M.A., Littman, D.R., Huh, J.R. Bile acid metabolites control T17 and T cell differentiation. (2019) Nature. DOI: 10.1038/s41586-019-1785-z

+ expand abstract

Bapat, S.P., Liang, Y., Zheng, Y. Characterization of Immune Cells from Adipose Tissue. (2019) Current Protocols in Immunology. 126(1):e86. DOI: 10.1002/cpim.86

+ expand abstract

Chang, C., Loo, C.S., Zhao, X., Solt, L.A., Liang, Y., Bapat, S.P., Cho, H., Kamenecka, T.M., Leblanc, M., Atkins, A.R., Yu, R.T., Downes, M., Burris, T.P., Evans, R.M., Zheng, Y. The nuclear receptor REV-ERBα modulates Th17 cell-mediated autoimmune disease. (2019) Proceedings of the National Academy of Sciences of the United States of America. 116(37):18528-18536. DOI: 10.1073/pnas.1907563116

+ expand abstract

Owen, D.L., Mahmud, S.A., Sjaastad, L.E., Williams, J.B., Spanier, J.A., Simeonov, D.R., Ruscher, R., Huang, W., Proekt, I., Miller, C.N., Hekim, C., Jeschke, J.C., Aggarwal, P., Broeckel, U., LaRue, R.S., Henzler, C.M., Alegre, M.L., Anderson, M.S., August, A., Marson, A., Zheng, Y., Williams, C.B., Farrar, M.A. Thymic regulatory T cells arise via two distinct developmental programs. (2019) Nature Immunology. DOI: 10.1038/s41590-018-0289-6

+ expand abstract

Zhang, L.J., Chen, S.X., Guerrero-Juarez, C.F., Li, F., Tong, Y., Liang, Y., Liggins, M., Chen, X., Chen, H., Li, M., Hata, T., Zheng, Y., Plikus, M.V., Gallo, R.L. Age-Related Loss of Innate Immune Antimicrobial Function of Dermal Fat Is Mediated by Transforming Growth Factor Beta. (2018) Immunity. DOI: 10.1016/j.immuni.2018.11.003

+ expand abstract

Klann, J.E., Kim, S.H., Remedios, K.A., He, Z., Metz, P.J., Lopez, J., Tysl, T., Olvera, J.G., Ablack, J.N., Cantor, J.M., Boland, B.S., Yeo, G., Zheng, Y., Lu, L.F., Bui, J.D., Ginsberg, M.H., Petrich, B.G., Chang, J.T. Integrin Activation Controls Regulatory T Cell-Mediated Peripheral Tolerance. (2018) Journal of Immunology. 200(12):4012-4023. DOI: 10.4049/jimmunol.1800112

+ expand abstract

Cao, Q., Zhao, X., Bai, J., Gery, S., Sun, H., Lin, D.C., Chen, Q., Chen, Z., Mack, L., Yang, H., Deng, R., Shi, X., Chong, L.W., Cho, H., Xie, J., Li, Q.Z., Müschen, M., Atkins, A.R., Liddle, C., Yu, R.T., Alkan, S., Said, J.W., Zheng, Y., Downes, M., Evans, R.M., Koeffler, H.P. Circadian clock cryptochrome proteins regulate autoimmunity. (2017) Proceedings of the National Academy of Sciences of the United States of America. 114(47):12548-12553. DOI: 10.1073/pnas.1619119114

+ expand abstract

He, N., Fan, W., Henriquez, B., Yu, R.T., Atkins, A.R., Liddle, C., Zheng, Y., Downes, M., Evans, R.M. Metabolic control of regulatory T cell (Treg) survival and function by Lkb1. (2017) Proc. Natl. Acad. Sci. U.S.A. 114(47):12542-12547. DOI: 10.1073/pnas.1715363114

+ expand abstract

Wang, J., He, N., Zhang, N., Quan, D., Zhang, S., Zhang, C., Yu, R.T., Atkins, A.R., Zhu, R., Yang, C., Cui, Y., Liddle, C., Downes, M., Xiao, H., Zheng, Y., Auwerx, J., Evans, R.M., Leng, Q. NCoR1 restrains thymic negative selection by repressing Bim expression to spare thymocytes undergoing positive selection. (2017) Nature Communications. 8(1):959. DOI: 10.1038/s41467-017-00931-8

+ expand abstract

Zheng, Y. A Rogue Foxp3 Mutant Undermines Treg Cell Function. (2017) Immunity. 47(2):211-214. DOI: 10.1016/j.immuni.2017.07.024

+ expand abstract

Klann, J.E., Remedios, K.A., Kim, S.H., Metz, P.J., Lopez, J., Mack, L.A., Zheng, Y., Ginsberg, M.H., Petrich, B.G., Chang, J.T. Talin Plays a Critical Role in the Maintenance of the Regulatory T Cell Pool. (2017) Journal of Immunology. 198(12):4639-4651. DOI: 10.4049/jimmunol.1601165

+ expand abstract

Chinen, T., Kannan, A.K., Levine, A.G., Fan, X., Klein, U., Zheng, Y., Gasteiger, G., Feng, Y., Fontenot, J.D., Rudensky, A.Y. An essential role for the IL-2 receptor in Treg cell function. (2016) Nature Immunology. 17(11):1322-1333. DOI: 10.1038/ni.3540

+ expand abstract

Liu, W.H., Kang, S.G., Huang, Z., Wu, C.J., Jin, H.Y., Maine, C.J., Liu, Y., Shepherd, J., Sabouri-Ghomi, M., Gonzalez-Martin, A., Xu, S., Hoffmann, A., Zheng, Y., Lu, L.F., Xiao, N., Fu, G., Xiao, C. A miR-155-Peli1-c-Rel pathway controls the generation and function of T follicular helper cells. (2016) Journal of Experimental Medicine. 213(9):1901-19. DOI: 10.1084/jem.20160204

+ expand abstract

Bapat, S.P., Myoung Suh, J., Fang, S., Liu, S., Zhang, Y., Cheng, A., Zhou, C., Liang, Y., LeBlanc, M., Liddle, C., Atkins, A.R., Yu, R.T., Downes, M., Evans, R.M., Zheng, Y. Depletion of fat-resident Treg cells prevents age-associated insulin resistance. (2015) Nature. 528(7580):137-41. DOI: 10.1038/nature16151

+ expand abstract

Hernandez, J.B., Chang, C., LeBlanc, M., Grimm, D., Le Lay, J., Kaestner, K.H., Zheng, Y., Montminy, M. The CREB/CRTC2 pathway modulates autoimmune disease by promoting Th17 differentiation. (2015) Nature Communications. 6:7216. DOI: 10.1038/ncomms8216

+ expand abstract

Li, X., Zheng, Y. Regulatory T cell identity: formation and maintenance. (2015) Trends in Immunology. 36(6):344-53. DOI: 10.1016/j.it.2015.04.006

+ expand abstract

Li, X., Liang, Y., LeBlanc, M., Benner, C., Zheng, Y. Function of a Foxp3 cis-element in protecting regulatory T cell identity. (2014) Cell. 158(4):734-48. DOI: 10.1016/j.cell.2014.07.030

+ expand abstract

Zheng, Y. ChIP-on-chip for FoxP3. (2011) Methods in Molecular Biology. 707:71-82. DOI: 10.1007/978-1-61737-979-6_6

+ expand abstract

Zheng, Y., Josefowicz, S., Chaudhry, A., Peng, X.P., Forbush, K., Rudensky, A.Y. Role of conserved non-coding DNA elements in the Foxp3 gene in regulatory T-cell fate. (2010) Nature. 463(7282):808-12. DOI: 10.1038/nature08750

+ expand abstract

Zheng, Y., Chaudhry, A., Kas, A., deRoos, P., Kim, J.M., Chu, T.T., Corcoran, L., Treuting, P., Klein, U., Rudensky, A.Y. Regulatory T-cell suppressor program co-opts transcription factor IRF4 to control T(H)2 responses. (2009) Nature. 458(7236):351-6. DOI: 10.1038/nature07674

+ expand abstract

Wang, J., Wang, X., Hussain, S., Zheng, Y., Sanjabi, S., Ouaaz, F., Beg, A.A. Distinct roles of different NF-kappa B subunits in regulating inflammatory and T cell stimulatory gene expression in dendritic cells. (2007) Journal of Immunology. 178(11):6777-88.

+ expand abstract

Zheng, Y., Rudensky, A.Y. Foxp3 in control of the regulatory T cell lineage. (2007) Nature Immunology. 8(5):457-62. DOI: 10.1038/ni1455

+ expand abstract

Zheng, Y., Josefowicz, S.Z., Kas, A., Chu, T.T., Gavin, M.A., Rudensky, A.Y. Genome-wide analysis of Foxp3 target genes in developing and mature regulatory T cells. (2007) Nature. 445(7130):936-40. DOI: 10.1038/nature05563

+ expand abstract

Hsieh, C.S., Zheng, Y., Liang, Y., Fontenot, J.D., Rudensky, A.Y. An intersection between the self-reactive regulatory and nonregulatory T cell receptor repertoires. (2006) Nature Immunology. 7(4):401-10. DOI: 10.1038/ni1318

+ expand abstract

Prendes, M., Zheng, Y., Beg, A.A. Regulation of developing B cell survival by RelA-containing NF-kappa B complexes. (2003) Journal of Immunology. 171(8):3963-9.

+ expand abstract

Qu, J., Li, X., Novitch, B.G., Zheng, Y., Kohn, M., Xie, J.M., Kozinn, S., Bronson, R., Beg, A.A., Minden, A. PAK4 kinase is essential for embryonic viability and for proper neuronal development. (2003) Molecular and Cellular Biology. 23(20):7122-33.

+ expand abstract

Tao, X., Xu, Y., Zheng, Y., Beg, A.A., Tong, L. An extensively associated dimer in the structure of the C713S mutant of the TIR domain of human TLR2. (2002) Biochemical and Biophysical Research Communications. 299(2):216-21. DOI: 10.1016/s0006-291x(02)02581-0

+ expand abstract

Ouaaz, F., Arron, J., Zheng, Y., Choi, Y., Beg, A.A. Dendritic cell development and survival require distinct NF-kappaB subunits. (2002) Immunity. 16(2):257-70.

+ expand abstract