Mapping single-cell data to reference atlases by transfer learning von Lotfollahi, Mohammad, Naghipourfar, Mohsen, Luecken, Malte D., Khajavi, Matin, Büttner, Maren, Wagenstetter, Marco, Avsec, Žiga, Gayoso, Adam, Yosef, Nir, Interlandi, Marta, Rybakov, Sergei, Misharin, Alexander V., Theis, Fabian J.

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The role of macrophages in the resolution of inflammation von Watanabe, Satoshi, Alexander, Michael, Misharin, Alexander V, Budinger, G R Scott

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Flow cytometric analysis of macrophages and dendritic cell subsets in the mouse lung von Misharin, Alexander V, Morales-Nebreda, Luisa, Mutlu, Gökhan M, Budinger, G R Scott, Perlman, Harris

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Monocyte-derived alveolar macrophages drive lung fibrosis and persist in the lung over the life span von Misharin, Alexander V, Morales-Nebreda, Luisa, Reyfman, Paul A, Cuda, Carla M, Walter, James M, McQuattie-Pimentel, Alexandra C, Chen, Ching-I, Anekalla, Kishore R, Joshi, Nikita, Williams, Kinola J N, Abdala-Valencia, Hiam, Yacoub, Tyrone J, Chi, Monica, Chiu, Stephen, Gonzalez-Gonzalez, Francisco J, Gates, Khalilah, Lam, Anna P, Nicholson, Trevor T, Homan, Philip J, Soberanes, Saul, Dominguez, Salina, Morgan, Vince K, Saber, Rana, Shaffer, Alexander, Hinchcliff, Monique, Marshall, Stacy A, Bharat, Ankit, Berdnikovs, Sergejs, Bhorade, Sangeeta M, Bartom, Elizabeth T, Morimoto, Richard I, Balch, William E, Sznajder, Jacob I, Chandel, Navdeep S, Mutlu, Gökhan M, Jain, Manu, Gottardi, Cara J, Singer, Benjamin D, Ridge, Karen M, Bagheri, Neda, Shilatifard, Ali, Budinger, G R Scott, Perlman, Harris

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Local and systemic responses to SARS-CoV-2 infection in children and adults von Yoshida, Masahiro, Worlock, Kaylee B., Huang, Ni, Lindeboom, Rik G. H., Butler, Colin R., Kumasaka, Natsuhiko, Dominguez Conde, Cecilia, Mamanova, Lira, Bolt, Liam, Richardson, Laura, Polanski, Krzysztof, Madissoon, Elo, Barnes, Josephine L., Allen-Hyttinen, Jessica, Kilich, Eliz, Jones, Brendan C., de Wilton, Angus, Wilbrey-Clark, Anna, Sungnak, Waradon, Pett, J. Patrick, Weller, Juliane, Prigmore, Elena, Yung, Henry, Mehta, Puja, Saleh, Aarash, Saigal, Anita, Chu, Vivian, Cohen, Jonathan M., Cane, Clare, Iordanidou, Aikaterini, Shibuya, Soichi, Reuschl, Ann-Kathrin, Herczeg, Iván T., Argento, A. Christine, Wunderink, Richard G., Smith, Sean B., Poor, Taylor A., Gao, Catherine A., Dematte, Jane E., Reynolds, Gary, Haniffa, Muzlifah, Bowyer, Georgina S., Coates, Matthew, Clatworthy, Menna R., Calero-Nieto, Fernando J., Göttgens, Berthold, O’Callaghan, Christopher, Sebire, Neil J., Jolly, Clare, De Coppi, Paolo, Smith, Claire M., Misharin, Alexander V., Janes, Sam M., Teichmann, Sarah A., Nikolić, Marko Z., Meyer, Kerstin B.

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Distinctive features of severe SARS-CoV-2 pneumonia von Budinger, G. R. Scott, V. Misharin, Alexander, Ridge, Karen M., Singer, Benjamin D., Wunderink, Richard G.

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The Human Lung Cell Atlas: A High-Resolution Reference Map of the Human Lung in Health and Disease von Schiller, Herbert B, Montoro, Daniel T, Simon, Lukas M, Rawlins, Emma L, Meyer, Kerstin B, Strunz, Maximilian, Vieira Braga, Felipe A, Timens, Wim, Koppelman, Gerard H, Budinger, G R Scott, Burgess, Janette K, Waghray, Avinash, van den Berge, Maarten, Theis, Fabian J, Regev, Aviv, Kaminski, Naftali, Rajagopal, Jayaraj, Teichmann, Sarah A, Misharin, Alexander V, Nawijn, Martijn C

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Therapeutic targeting of polycomb and BET bromodomain proteins in diffuse intrinsic pontine gliomas von Piunti, Andrea, Hashizume, Rintaro, Morgan, Marc A, Bartom, Elizabeth T, Horbinski, Craig M, Marshall, Stacy A, Rendleman, Emily J, Ma, Quanhong, Takahashi, Yoh-hei, Woodfin, Ashley R, Misharin, Alexander V, Abshiru, Nebiyu A, Lulla, Rishi R, Saratsis, Amanda M, Kelleher, Neil L, James, C David, Shilatifard, Ali

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Nonclassical Ly6C− Monocytes Drive the Development of Inflammatory Arthritis in Mice von Misharin, Alexander V., Cuda, Carla M., Saber, Rana, Turner, Jason D., Gierut, Angelica K., Haines, G. Kenneth, Berdnikovs, Sergejs, Filer, Andrew, Clark, Andrew R., Buckley, Christopher D., Mutlu, Gökhan M., Budinger, G.R. Scott, Perlman, Harris

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The PYRIN Domain-only Protein POP1 Inhibits Inflammasome Assembly and Ameliorates Inflammatory Disease von de Almeida, Lucia, Khare, Sonal, Misharin, Alexander V., Patel, Rajul, Ratsimandresy, Rojo A., Wallin, Melissa C., Perlman, Harris, Greaves, David R., Hoffman, Hal M., Dorfleutner, Andrea, Stehlik, Christian

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CD11b suppresses TLR activation of nonclassical monocytes to reduce primary graft dysfunction after lung transplantation von Querrey, Melissa, Chiu, Stephen, Lecuona, Emilia, Wu, Qiang, Sun, Haiying, Anderson, Megan, Kelly, Megan, Ravi, Sowmya, Misharin, Alexander V, Kreisel, Daniel, Bharat, Ankit, Budinger, G R Scott

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Inflammatory Monocytes Drive Influenza A Virus-Mediated Lung Injury in Juvenile Mice von Coates, Bria M, Staricha, Kelly L, Koch, Clarissa M, Cheng, Yuan, Shumaker, Dale K, Budinger, G R Scott, Perlman, Harris, Misharin, Alexander V, Ridge, Karen M

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Flow Cytometry Reveals Similarities Between Lung Macrophages in Humans and Mice von Bharat, Ankit, Bhorade, Sangeeta M, Morales-Nebreda, Luisa, McQuattie-Pimentel, Alexandra C, Soberanes, Saul, Ridge, Karen, DeCamp, Malcolm M, Mestan, Karen K, Perlman, Harris, Budinger, G R Scott, Misharin, Alexander V

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The heterogeneity of lung macrophages in the susceptibility to disease von Morales-Nebreda, Luisa, Misharin, Alexander V, Perlman, Harris, Budinger, G R Scott

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Metformin Targets Mitochondrial Electron Transport to Reduce Air-Pollution-Induced Thrombosis von Soberanes, Saul, Misharin, Alexander V., Jairaman, Amit, Morales-Nebreda, Luisa, McQuattie-Pimentel, Alexandra C., Cho, Takugo, Hamanaka, Robert B., Meliton, Angelo Y., Reyfman, Paul A., Walter, James M., Chen, Ching-I, Chi, Monica, Chiu, Stephen, Gonzalez-Gonzalez, Francisco J., Antalek, Matthew, Abdala-Valencia, Hiam, Chiarella, Sergio E., Sun, Kaitlyn A., Woods, Parker S., Ghio, Andrew J., Jain, Manu, Perlman, Harris, Ridge, Karen M., Morimoto, Richard I., Sznajder, Jacob I., Balch, William E., Bhorade, Sangeeta M., Bharat, Ankit, Prakriya, Murali, Chandel, Navdeep S., Mutlu, Gökhan M., Budinger, G.R. Scott

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The PYRIN domain-only protein POP2 inhibits inflammasome priming and activation von Ratsimandresy, Rojo A., Chu, Lan H., Khare, Sonal, de Almeida, Lucia, Gangopadhyay, Anu, Indramohan, Mohanalaxmi, Misharin, Alexander V., Greaves, David R., Perlman, Harris, Dorfleutner, Andrea, Stehlik, Christian

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Vitamin D Deficiency in Mice Impairs Colonic Antibacterial Activity and Predisposes to Colitis von Lagishetty, Venu, Misharin, Alexander V, Liu, Nancy Q, Lisse, Thomas S, Chun, Rene F, Ouyang, Yi, McLachlan, Sandra M, Adams, John S, Hewison, Martin

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Eosinophil contamination of thioglycollate-elicited peritoneal macrophage cultures skews the functional readouts of in vitro assays von Misharin, Alexander V., Saber, Rana, Perlman, Harris

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Machine learning links unresolving secondary pneumonia to mortality in patients with severe pneumonia, including COVID-19 von Gao, Catherine A, Markov, Nikolay S, Stoeger, Thomas, Pawlowski, Anna, Kang, Mengjia, Nannapaneni, Prasanth, Grant, Rogan A, Pickens, Chiagozie, Walter, James M, Kruser, Jacqueline M, Rasmussen, Luke, Schneider, Daniel, Starren, Justin, Donnelly, Helen K, Donayre, Alvaro, Luo, Yuan, Budinger, G R Scott, Wunderink, Richard G, Misharin, Alexander V, Singer, Benjamin D

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Alveolar Macrophages von Joshi, Nikita, Walter, James M., Misharin, Alexander V.

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