Intra- and Inter-cellular Rewiring of the Human Colon during Ulcerative Colitis

by Ordovas-Montanes, Jose Manuel, Graham, Daniel B., Shalek, Alexander K, Xavier, Ramnik Joseph, Regev, Aviv
Published 2020

Cyclin D3 drives inertial cell cycling in dark zone germinal center B cells

by Pae, Juhee, Ersching, Jonatan, Castro, Tiago BR, Schips, Marta, Mesin, Luka, Allon, Samuel J, Ordovas-Montanes, Jose, Mlynarczyk, Coraline, Melnick, Ari, Efeyan, Alejo, Shalek, Alex K, Meyer-Hermann, Michael, Victora, Gabriel D
Published 2022

A Reproducibility-Based Computational Framework Identifies an Inducible, Enhanced Antiviral State in Dendritic Cells from HIV-1 Elite Controllers

by Martin-Gayo, Enrique, Ouyang, Zhengyu, Cronin, Jacqueline, Lichterfeld, Mathias, Yosef, Nir, Cole, Michael B., Walker, Bruce D., Yu, Xu G., Kolb, Kellie Elizabeth, Kazer, Samuel Weisgurt, Ordovas-Montanes, Jose Manuel, Shalek, Alexander K
Published 2018

A Reproducibility-Based Computational Framework Identifies an Inducible, Enhanced Antiviral State in Dendritic Cells from HIV-1 Elite Controllers

by Martin-Gayo, Enrique, Cole, Michael B., Ouyang, Zhengyu, Cronin, Jacqueline, Lichterfeld, Mathias, Walker, Bruce D., Yosef, Nir, Yu, Xu G., Kolb, Kellie Elizabeth, Kazer, Samuel Weisgurt, Ordovas-Montanes, Jose Manuel, Shalek, Alexander K
Published 2018

Novel in vitro booster vaccination to rapidly generate antigen-specific human monoclonal antibodies

by Sanjuan Nandin, Irene, Fong, Carol, Deantonio, Cecilia, Torreno-Pina, Juan A., Pecetta, Simone, Maldonado, Paula, Gasparrini, Francesca, Kjaer, Svend, Borley, Daryl W., Nair, Usha, Coleman, Julia A., Lingwood, Daniel, Meffre, Eric, Poignard, Pascal, Burton, Dennis R., Batista, Facundo D., Ordovas-Montanes, Jose Manuel, Kazer, Samuel Weisgurt, Shalek, Alexander K
Published 2018

Allergic inflammatory memory in human respiratory epithelial progenitor cells

by Ordovas-Montanes, Jose Manuel, Dwyer, Daniel F., Nyquist, Sarah Kate, Buchheit, Kathleen M., Vukovic, Marko, Deb, Chaarushena, Wadsworth, Marc Havens, Hughes, Travis K., Kazer, Samuel Weisgurt, Yoshimoto, Eri, Cahill, Katherine N., Bhattacharyya, Neil, Katz, Howard R., Berger Leighton, Bonnie, Laidlaw, Tanya M., Boyce, Joshua A., Barrett, Nora A., Shalek, Alexander K
Published 2019

Harnessing single-cell genomics to improve the physiological fidelity of organoid-derived cell types

by Szucs, Matthew J, Ammendolia, Dustin A, MacMullan, Melanie A, Rakoff-Nahoum, Seth, Mead, Benjamin Elliott, Ordovas-Montanes, Jose Manuel, Braun, Alexandra Provost, Levy, Lauren, Saluja, Prerna Bhargava, Yin, Xiaolei, Hughes, Travis K., Wadsworth, Marc Havens, Ahmad, Rushdy, Carr, Steven A, Langer, Robert S, Collins, James J., Shalek, Alexander K, Karp, Jeffrey Michael
Published 2018

Human airway mast cells proliferate and acquire distinct inflammation-driven phenotypes during type 2 inflammation

by Dwyer, Daniel F, Ordovas-Montanes, Jose, Allon, Samuel J, Buchheit, Kathleen M, Vukovic, Marko, Derakhshan, Tahereh, Feng, Chunli, Lai, Juying, Hughes, Travis K, Nyquist, Sarah K, Giannetti, Matthew P, Berger, Bonnie, Bhattacharyya, Neil, Roditi, Rachel E, Katz, Howard R, Nawijn, Martijn C, Berg, Marijn, van den Berge, Maarten, Laidlaw, Tanya M, Shalek, Alex K, Barrett, Nora A, Boyce, Joshua A
Published 2022

Impaired local intrinsic immunity to SARS-CoV-2 infection in severe COVID-19

by Ziegler, Carly, Miao, Vincent N., Owings, Anna H., Navia, Andrew W., Tang, Ying, Bromley, Joshua D., Lotfy, Peter, Sloan, Meredith, Laird, Hannah, Williams, Haley B., George, Micayla, Drake, Riley S., Christian, Taylor, Parker, Adam, Sindel, Campbell B., Burger, Molly W., Pride, Yilianys, Hasan, Mohammad, Abraham, George E., Senitko, Michal, Robinson, Tanya O., Shalek, Alexander K, Glover, Sarah C., Horwitz, Bruce H., Ordovas-Montanes, Jose
Published 2021

T Helper Cell Cytokines Modulate Intestinal Stem Cell Renewal and Differentiation

by Biton, Moshe, Haber, Adam L., Rogel, Noga, Burgin, Grace, Beyaz, Semir, Schnell, Alexandra, Ashenberg, Orr, Su, Chien-Wen, Smillie, Christopher, Shekhar, Karthik, Chen, Zuojia, Wu, Chuan, Ordovas-Montanes, Jose Manuel, Alvarez, David, Herbst, Rebecca H., Zhang, Mei, Tirosh, Itay, Dionne, Danielle, Nguyen, Lan T., Xifaras, Michael, Shalek, Alexander K, von Andrian, Ulrich H., Graham, Daniel B., Rozenblatt-Rosen, Orit, Shi, Hai Ning, Kuchroo, Vijay, Yilmaz, Omer, Regev, Aviv, Xavier, Ramnik Joseph
Published 2020

SARS-CoV-2 receptor ACE2 is an interferon-stimulated gene in human airway epithelial cells and is detected in specific cell subsets across tissues

by Ziegler, Carly G.K, Allon, Samuel J., Nyquist, Sarah K., Mbano, Ian M., Miao, Vincent N., Tzouanas, Constantine N., Cao, Yuming, Yousif, Ashraf S., Bals, Julia, Hauser, Blake M., Feldman, Jared, Muus, Christoph, Wadsworth, Marc H., Kazer, Samuel W., Hughes, Travis K., Doran, Benjamin, Gatter, G. James, Vukovic, Marko, Taliaferro, Faith, Mead, Benjamin E., Guo, Zhiru, Wang, Jennifer P., Gras, Delphine, Plaisant, Magali, Ansari, Meshal, Angelidis, Ilias, Adler, Heiko, Sucre, Jennifer M.S, Taylor, Chase J., Lin, Brian, Waghray, Avinash, Mitsialis, Vanessa, Dwyer, Daniel F., Buchheit, Kathleen M., Boyce, Joshua A., Barrett, Nora A., Laidlaw, Tanya M., Carroll, Shaina L., Colonna, Lucrezia, Tkachev, Victor, Peterson, Christopher W., Yu, Alison, Zheng, Hengqi Betty, Gideon, Hannah P., Winchell, Caylin G., Lin, Philana Ling, Bingle, Colin D., Snapper, Scott B., Kropski, Jonathan A., Theis, Fabian J., Schiller, Herbert B., Zaragosi, Laure-Emmanuelle, Barbry, Pascal, Leslie, Alasdair, Kiem, Hans-Peter, Flynn, JoAnne L., Fortune, Sarah M., Berger, Bonnie, Finberg, Robert W., Kean, Leslie S., Garber, Manuel, Schmidt, Aaron G., Lingwood, Daniel, Shalek, Alex K., Ordovas-Montanes, Jose
Published 2020

Chronic lung diseases are associated with gene expression programs favoring SARS-CoV-2 entry and severity

by Bui, Linh T., Winters, Nichelle I., Chung, Mei-I, Joseph, Chitra, Gutierrez, Austin J., Habermann, Arun C., Adams, Taylor S., Schupp, Jonas C., Poli, Sergio, Peter, Lance M., Taylor, Chase J., Blackburn, Jessica B., Richmond, Bradley W., Nicholson, Andrew G., Rassl, Doris, Wallace, William A., Rosas, Ivan O., Jenkins, R. Gisli, Kaminski, Naftali, Kropski, Jonathan A., Banovich, Nicholas E., Misharin, Alexander V., Tsankov, Alexander M., Spira, Avrum, Barbry, Pascal, Brazma, Alvis, Samakovlis, Christos, Shepherd, Douglas P., Rawlins, Emma L., Theis, Fabian J., Griffonnet, Jennifer, Lee, Haeock, Schiller, Herbert B., Hofman, Paul, Powell, Joseph E., Schultze, Joachim L., Whitsett, Jeffrey, Choi, Jiyeon, Lundeberg, Joakim, Kaminski, Naftali, Kropski, Jonathan A., Banovich, Nicholas E., Ordovas-Montanes, Jose, Rajagopal, Jayaraj, Meyer, Kerstin B., Krasnow, Mark A., Saeb‐Parsy, Kourosh, Zhang, Kun, Lafyatis, Robert, Leroy, Sylvie, Haniffa, Muzlifah, Nawijn, Martijn C., Nikolić, Marko Z., van den Berge, Maarten, Kuhnemund, Malte, Marquette, Charles-Hugo, Von Papen, Michael, Eickelberg, Oliver, Rosenblatt-Rosen, Orit, Reyfman, Paul A., Pe'er, Dana, Horvath, Peter, Tata, Purushothama Rao, Regev, Aviv, Rojas, Mauricio, Seibold, Max A., Shalek, Alex K., Spence, Jason R., Teichmann, Sarah A., Quake, Stephen, Duong, Thu Elizabeth, Biancalani, Tommaso, Desai, Tushar, Sun, Xin, Zaragosi, Laure Emmanuelle
Published 2022