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

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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

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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

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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

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IL-5Rα marks nasal polyp IgG4- and IgE-expressing cells in aspirin-exacerbated respiratory disease by Buchheit, Kathleen M, Dwyer, Daniel F, Ordovas-Montanes, Jose, Katz, Howard R, Lewis, Erin, Vukovic, Marko, Lai, Juying, Bankova, Lora G, Bhattacharyya, Neil, Shalek, Alex K, Barrett, Nora A, Boyce, Joshua A, Laidlaw, Tanya M

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Single-Cell Analysis of the Liver Epithelium Reveals Dynamic Heterogeneity and an Essential Role for YAP in Homeostasis and Regeneration by Pepe-Mooney, Brian J, Dill, Michael T, Alemany, Anna, Ordovas-Montanes, Jose, Matsushita, Yuki, Rao, Anuradha, Sen, Anushna, Miyazaki, Makoto, Anakk, Sayeepriyadarshini, Dawson, Paul A, Ono, Noriaki, Shalek, Alex K, van Oudenaarden, Alexander, Camargo, Fernando D

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Screening for modulators of the cellular composition of gut epithelia via organoid models of intestinal stem cell differentiation by Mead, Benjamin E, Hattori, Kazuki, Levy, Lauren, Imada, Shinya, Goto, Norihiro, Vukovic, Marko, Sze, Daphne, Kummerlowe, Conner, Matute, Juan D, Duan, Jinzhi, Langer, Robert, Blumberg, Richard S, Ordovas-Montanes, Jose, Yilmaz, Ömer H, Karp, Jeffrey M, Shalek, Alex K

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Second-Strand Synthesis-Based Massively Parallel scRNA-Seq Reveals Cellular States and Molecular Features of Human Inflammatory Skin Pathologies by Hughes, Travis K, Wadsworth, Marc H, Gierahn, Todd M, Do, Tran, Weiss, David, Andrade, Priscila R, Ma, Feiyang, de Andrade Silva, Bruno J, Shao, Shuai, Tsoi, Lam C, Ordovas-Montanes, Jose, Gudjonsson, Johann E, Modlin, Robert L, Love, J Christopher, Shalek, Alex K

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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

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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

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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

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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

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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

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Single-cell profiling of environmental enteropathy reveals signatures of epithelial remodeling and immune activation by Kummerlowe, Conner, Mwakamui, Simutanyi, Hughes, Travis K, Mulugeta, Nolawit, Mudenda, Victor, Besa, Ellen, Zyambo, Kanekwa, Shay, Jessica ES, Fleming, Ira, Vukovic, Marko, Doran, Ben A, Aicher, Toby P, Wadsworth, Marc H, Bramante, Juliet Tongue, Uchida, Amiko M, Fardoos, Rabiah, Asowata, Osaretin E, Herbert, Nicholas, Yilmaz, Ömer H, Kløverpris, Henrik N, Garber, John J, Ordovas-Montañes, José, Gartner, Zev J, Wallach, Thomas, Shalek, Alex K, Kelly, Paul

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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

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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

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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

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