The plasticity of human Treg and Th17 cells and its role in autoimmunity von Kleinewietfeld, Markus, Hafler, David A

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Treg Cells Expressing the Coinhibitory Molecule TIGIT Selectively Inhibit Proinflammatory Th1 and Th17 Cell Responses von Joller, Nicole, Lozano, Ester, Burkett, Patrick R., Patel, Bonny, Xiao, Sheng, Zhu, Chen, Xia, Junrong, Tan, Tze G., Sefik, Esen, Yajnik, Vijay, Sharpe, Arlene H., Quintana, Francisco J., Mathis, Diane, Benoist, Christophe, Hafler, David A., Kuchroo, Vijay K.

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Identification of T helper type 1–like, Foxp3+ regulatory T cells in human autoimmune disease von Dominguez-Villar, Margarita, Baecher-Allan, Clare M, Hafler, David A

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scNAT: a deep learning method for integrating paired single-cell RNA and T cell receptor sequencing profiles von Zhu, Biqing, Wang, Yuge, Ku, Li-Ting, van Dijk, David, Zhang, Le, Hafler, David A, Zhao, Hongyu

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Cytokines in New‐Onset Refractory Status Epilepticus Predict Outcomes von Hanin, Aurélie, Cespedes, Jorge, Dorgham, Karim, Pulluru, Yashwanth, Gopaul, Margaret, Gorochov, Guy, Hafler, David A., Navarro, Vincent, Gaspard, Nicolas, Hirsch, Lawrence J.

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Dissection of artifactual and confounding glial signatures by single-cell sequencing of mouse and human brain von Marsh, Samuel E., Walker, Alec J., Kamath, Tushar, Dissing-Olesen, Lasse, Hammond, Timothy R., de Soysa, T. Yvanka, Young, Adam M. H., Murphy, Sarah, Abdulraouf, Abdulraouf, Nadaf, Naeem, Dufort, Connor, Walker, Alicia C., Lucca, Liliana E., Kozareva, Velina, Vanderburg, Charles, Hong, Soyon, Bulstrode, Harry, Hutchinson, Peter J., Gaffney, Daniel J., Hafler, David A., Franklin, Robin J. M., Macosko, Evan Z., Stevens, Beth

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Single-cell multi-omics reveals dyssynchrony of the innate and adaptive immune system in progressive COVID-19 von Unterman, Avraham, Sumida, Tomokazu S., Nouri, Nima, Yan, Xiting, Zhao, Amy Y., Gasque, Victor, Schupp, Jonas C., Asashima, Hiromitsu, Liu, Yunqing, Cosme, Carlos, Deng, Wenxuan, Chen, Ming, Raredon, Micha Sam Brickman, Hoehn, Kenneth B., Wang, Guilin, Wang, Zuoheng, DeIuliis, Giuseppe, Ravindra, Neal G., Li, Ningshan, Castaldi, Christopher, Wong, Patrick, Fournier, John, Bermejo, Santos, Sharma, Lokesh, Casanovas-Massana, Arnau, Vogels, Chantal B. F., Wyllie, Anne L., Grubaugh, Nathan D., Melillo, Anthony, Meng, Hailong, Stein, Yan, Minasyan, Maksym, Mohanty, Subhasis, Ruff, William E., Cohen, Inessa, Raddassi, Khadir, Niklason, Laura E., Ko, Albert I., Montgomery, Ruth R., Farhadian, Shelli F., Iwasaki, Akiko, Shaw, Albert C., van Dijk, David, Zhao, Hongyu, Kleinstein, Steven H., Hafler, David A., Kaminski, Naftali, Dela Cruz, Charles S.

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pRESTO: a toolkit for processing high-throughput sequencing raw reads of lymphocyte receptor repertoires von Vander Heiden, Jason A, Yaari, Gur, Uduman, Mohamed, Stern, Joel N H, O'Connor, Kevin C, Hafler, David A, Vigneault, Francois, Kleinstein, Steven H

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Genetic and epigenetic fine mapping of causal autoimmune disease variants von Farh, Kyle Kai-How, Marson, Alexander, Zhu, Jiang, Kleinewietfeld, Markus, Housley, William J., Beik, Samantha, Shoresh, Noam, Whitton, Holly, Ryan, Russell J. H., Shishkin, Alexander A., Hatan, Meital, Carrasco-Alfonso, Marlene J., Mayer, Dita, Luckey, C. John, Patsopoulos, Nikolaos A., De Jager, Philip L., Kuchroo, Vijay K., Epstein, Charles B., Daly, Mark J., Hafler, David A., Bernstein, Bradley E.

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From Big Data to Precision Medicine von Hulsen, Tim, Jamuar, Saumya S, Moody, Alan R, Karnes, Jason H, Varga, Orsolya, Hedensted, Stine, Spreafico, Roberto, Hafler, David A, McKinney, Eoin F

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Regulatory T cells in peripheral tissue tolerance and diseases von Cheru, Nardos, Hafler, David A, Sumida, Tomokazu S

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Regulatory T cells in autoimmune disease von Dominguez-Villar, Margarita, Hafler, David A.

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Pervasive sharing of genetic effects in autoimmune disease von Cotsapas, Chris, Voight, Benjamin F, Rossin, Elizabeth, Lage, Kasper, Neale, Benjamin M, Wallace, Chris, Abecasis, Gonçalo R, Barrett, Jeffrey C, Behrens, Timothy, Cho, Judy, De Jager, Philip L, Elder, James T, Graham, Robert R, Gregersen, Peter, Klareskog, Lars, Siminovitch, Katherine A, van Heel, David A, Wijmenga, Cisca, Worthington, Jane, Todd, John A, Hafler, David A, Rich, Stephen S, Daly, Mark J

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TGF-β1 modulates microglial phenotype and promotes recovery after intracerebral hemorrhage von Taylor, Roslyn A, Chang, Che-Feng, Goods, Brittany A, Hammond, Matthew D, Mac Grory, Brian, Ai, Youxi, Steinschneider, Arthur F, Renfroe, Stephen C, Askenase, Michael H, McCullough, Louise D, Kasner, Scott E, Mullen, Michael T, Hafler, David A, Love, J Christopher, Sansing, Lauren H

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Fine-mapping the genetic association of the major histocompatibility complex in multiple sclerosis: HLA and non-HLA effects von Patsopoulos, Nikolaos A, Barcellos, Lisa F, Hintzen, Rogier Q, Schaefer, Catherine, van Duijn, Cornelia M, Noble, Janelle A, Raj, Towfique, Gourraud, Pierre-Antoine, Stranger, Barbara E, Oksenberg, Jorge, Olsson, Tomas, Taylor, Bruce V, Sawcer, Stephen, Hafler, David A, Carrington, Mary, De Jager, Philip L, de Bakker, Paul I W

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Microbial reprogramming inhibits Western diet-associated obesity von Poutahidis, Theofilos, Kleinewietfeld, Markus, Smillie, Christopher, Levkovich, Tatiana, Perrotta, Alison, Bhela, Siddheshvar, Varian, Bernard J, Ibrahim, Yassin M, Lakritz, Jessica R, Kearney, Sean M, Chatzigiagkos, Antonis, Hafler, David A, Alm, Eric J, Erdman, Susan E

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Polarization of the Effects of Autoimmune and Neurodegenerative Risk Alleles in Leukocytes von Raj, Towfique, Rothamel, Katie, Mostafavi, Sara, Ye, Chun, Lee, Mark N., Replogle, Joseph M., Feng, Ting, Lee, Michelle, Asinovski, Natasha, Frohlich, Irene, Imboywa, Selina, Von Korff, Alina, Okada, Yukinori, Patsopoulos, Nikolaos A., Davis, Scott, McCabe, Cristin, Paik, Hyun-il, Srivastava, Gyan P., Raychaudhuri, Soumya, Hafler, David A., Koller, Daphne, Regev, Aviv, Hacohen, Nir, Mathis, Diane, Benoist, Christophe, Stranger, Barbara E., De Jager, Philip L.

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Polyfunctional responses by human T cells result from sequential release of cytokines von Han, Qing, Bagheri, Neda, Bradshaw, Elizabeth M., Hafler, David A., Lauffenburger, Douglas A., Love, J. Christopher

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Common Genetic Variants Modulate Pathogen-Sensing Responses in Human Dendritic Cells von Lee, Mark N., Ye, Chun, Villani, Alexandra-Chloé, Raj, Towfique, Li, Weibo, Eisenhaure, Thomas M., Imboywa, Selina H., Chipendo, Portia I., Ran, F. Ann, Slowikowski, Kamil, Ward, Lucas D., Raddassi, Khadir, McCabe, Cristin, Lee, Michelle H., Frohlich, Irene Y., Hafler, David A., Kellis, Manolis, Raychaudhuri, Soumya, Zhang, Feng, Stranger, Barbara E., Benoist, Christophe O., De Jager, Philip L., Regev, Aviv, Hacohen, Nir

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Small-Molecule RORγt Antagonists Inhibit T Helper 17 Cell Transcriptional Network by Divergent Mechanisms von Xiao, Sheng, Yosef, Nir, Yang, Jianfei, Wang, Yonghui, Zhou, Ling, Zhu, Chen, Wu, Chuan, Baloglu, Erkan, Schmidt, Darby, Ramesh, Radha, Lobera, Mercedes, Sundrud, Mark S., Tsai, Pei-Yun, Xiang, Zhijun, Wang, Jinsong, Xu, Yan, Lin, Xichen, Kretschmer, Karsten, Rahl, Peter B., Young, Richard A., Zhong, Zhong, Hafler, David A., Regev, Aviv, Ghosh, Shomir, Marson, Alexander, Kuchroo, Vijay K.

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