Single-cell reconstruction of developmental trajectories during zebrafish embryogenesis von Farrell, Jeffrey A, Wang, Yiqun, Riesenfeld, Samantha J, Shekhar, Karthik, Regev, Aviv, Schier, Alexander F

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Calcitonin Gene-Related Peptide Negatively Regulates Alarmin-Driven Type 2 Innate Lymphoid Cell Responses von Wallrapp, Antonia, Burkett, Patrick R., Riesenfeld, Samantha J., Kim, Se-Jin, Christian, Elena, Abdulnour, Raja-Elie E., Thakore, Pratiksha I., Schnell, Alexandra, Lambden, Conner, Herbst, Rebecca H., Khan, Pavana, Tsujikawa, Kazutake, Xavier, Ramnik J., Chiu, Isaac M., Levy, Bruce D., Regev, Aviv, Kuchroo, Vijay K.

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Type 2 innate lymphoid cells in the induction and resolution of tissue inflammation von Wallrapp, Antonia, Riesenfeld, Samantha J., Burkett, Patrick R., Kuchroo, Vijay K.

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PhylOTU: a high-throughput procedure quantifies microbial community diversity and resolves novel taxa from metagenomic data von Sharpton, Thomas J, Riesenfeld, Samantha J, Kembel, Steven W, Ladau, Joshua, O'Dwyer, James P, Green, Jessica L, Eisen, Jonathan A, Pollard, Katherine S

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Dissection and integration of bursty transcriptional dynamics for complex systems von Gao, Cheng Frank, Vaikuntanathan, Suriyanarayanan, Riesenfeld, Samantha J

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A cellular and spatial map of the choroid plexus across brain ventricles and ages von Dani, Neil, Herbst, Rebecca H., McCabe, Cristin, Green, Gilad S., Kaiser, Karol, Head, Joshua P., Cui, Jin, Shipley, Frederick B., Jang, Ahram, Dionne, Danielle, Nguyen, Lan, Rodman, Christopher, Riesenfeld, Samantha J., Prochazka, Jan, Prochazkova, Michaela, Sedlacek, Radislav, Zhang, Feng, Bryja, Vitezslav, Rozenblatt-Rosen, Orit, Habib, Naomi, Regev, Aviv, Lehtinen, Maria K.

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The neuropeptide NMU amplifies ILC2-driven allergic lung inflammation von Wallrapp, Antonia, Riesenfeld, Samantha J., Burkett, Patrick R., Abdulnour, Raja-Elie E., Nyman, Jackson, Dionne, Danielle, Hofree, Matan, Cuoco, Michael S., Rodman, Christopher, Farouq, Daneyal, Haas, Brian J., Tickle, Timothy L., Trombetta, John J., Baral, Pankaj, Klose, Christoph S. N., Mahlakõiv, Tanel, Artis, David, Rozenblatt-Rosen, Orit, Chiu, Isaac M., Levy, Bruce D., Kowalczyk, Monika S., Regev, Aviv, Kuchroo, Vijay K.

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Nociceptor neurons direct goblet cells via a CGRP-RAMP1 axis to drive mucus production and gut barrier protection von Yang, Daping, Jacobson, Amanda, Meerschaert, Kimberly A., Sifakis, Joseph Joy, Wu, Meng, Chen, Xi, Yang, Tiandi, Zhou, Youlian, Anekal, Praju Vikas, Rucker, Rachel A., Sharma, Deepika, Sontheimer-Phelps, Alexandra, Wu, Glendon S., Deng, Liwen, Anderson, Michael D., Choi, Samantha, Neel, Dylan, Lee, Nicole, Kasper, Dennis L., Jabri, Bana, Huh, Jun R., Johansson, Malin, Thiagarajah, Jay R., Riesenfeld, Samantha J., Chiu, Isaac M.

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Transcriptional Atlas of Intestinal Immune Cells Reveals that Neuropeptide α-CGRP Modulates Group 2 Innate Lymphoid Cell Responses von Xu, Heping, Ding, Jiarui, Porter, Caroline B.M., Wallrapp, Antonia, Tabaka, Marcin, Ma, Sai, Fu, Shujie, Guo, Xuanxuan, Riesenfeld, Samantha J., Su, Chienwen, Dionne, Danielle, Nguyen, Lan T., Lefkovith, Ariel, Ashenberg, Orr, Burkett, Patrick R., Shi, Hai Ning, Rozenblatt-Rosen, Orit, Graham, Daniel B., Kuchroo, Vijay K., Regev, Aviv, Xavier, Ramnik J.

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Skin-resident innate lymphoid cells converge on a pathogenic effector state von Bielecki, Piotr, Riesenfeld, Samantha J., Hütter, Jan-Christian, Torlai Triglia, Elena, Kowalczyk, Monika S., Ricardo-Gonzalez, Roberto R., Lian, Mi, Amezcua Vesely, Maria C., Kroehling, Lina, Xu, Hao, Slyper, Michal, Muus, Christoph, Ludwig, Leif S., Christian, Elena, Tao, Liming, Kedaigle, Amanda J., Steach, Holly R., York, Autumn G., Skadow, Mathias H., Yaghoubi, Parastou, Dionne, Danielle, Jarret, Abigail, McGee, Heather M., Porter, Caroline B. M., Licona-Limón, Paula, Bailis, Will, Jackson, Ruaidhrí, Gagliani, Nicola, Gasteiger, Georg, Locksley, Richard M., Regev, Aviv, Flavell, Richard A.

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Eomes expression identifies the early bone marrow precursor to classical NK cells von Liang, Zhitao, Anderson, Hope D., Locher, Veronica, O’Leary, Crystal, Riesenfeld, Samantha J., Jabri, Bana, McDonald, Benjamin D., Bendelac, Albert

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A Distinct Transcriptional Program in Human CAR T Cells Bearing the 4-1BB Signaling Domain Revealed by scRNA-Seq von Boroughs, Angela C., Larson, Rebecca C., Marjanovic, Nemanja D., Gosik, Kirk, Castano, Ana P., Porter, Caroline B.M., Lorrey, Selena J., Ashenberg, Orr, Jerby, Livnat, Hofree, Matan, Smith-Rosario, Gabriela, Morris, Robert, Gould, Joshua, Riley, Lauren S., Berger, Trisha R., Riesenfeld, Samantha J., Rozenblatt-Rosen, Orit, Choi, Bryan D., Regev, Aviv, Maus, Marcela V.

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Immunotherapy-activated T cells recruit and skew late-stage activated M1-like macrophages that are critical for therapeutic efficacy von van Elsas, Marit J., Middelburg, Jim, Labrie, Camilla, Roelands, Jessica, Schaap, Gaby, Sluijter, Marjolein, Tonea, Ruxandra, Ovcinnikovs, Vitalijs, Lloyd, Katy, Schuurman, Janine, Riesenfeld, Samantha J., Gajewski, Thomas F., de Miranda, Noel F.C.C., van Hall, Thorbald, van der Burg, Sjoerd H.

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Induction of a colitogenic phenotype in Th1-like cells depends on interleukin-23 receptor signaling von Pawlak, Mathias, DeTomaso, David, Schnell, Alexandra, Meyer Zu Horste, Gerd, Lee, Youjin, Nyman, Jackson, Dionne, Danielle, Regan, Brianna M L, Singh, Vasundhara, Delorey, Toni, Schramm, Markus A, Wang, Chao, Wallrapp, Antonia, Burkett, Patrick R, Riesenfeld, Samantha J, Anderson, Ana C, Regev, Aviv, Xavier, Ramnik J, Yosef, Nir, Kuchroo, Vijay K

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GATA4 controls regionalization of tissue immunity and commensal-driven immunopathology von Earley, Zachary M., Lisicka, Wioletta, Sifakis, Joseph J., Aguirre-Gamboa, Raúl, Kowalczyk, Anita, Barlow, Jacob T., Shaw, Dustin G., Discepolo, Valentina, Tan, Ineke L., Gona, Saideep, Ernest, Jordan D., Matzinger, Polly, Barreiro, Luis B., Morgun, Andrey, Bendelac, Albert, Ismagilov, Rustem F., Shulzhenko, Natalia, Riesenfeld, Samantha J., Jabri, Bana

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Mouse fetal growth restriction through parental and fetal immune gene variation and intercellular communications cascade von Kaur, Gurman, Porter, Caroline B. M., Ashenberg, Orr, Lee, Jack, Riesenfeld, Samantha J., Hofree, Matan, Aggelakopoulou, Maria, Subramanian, Ayshwarya, Kuttikkatte, Subita Balaram, Attfield, Kathrine E., Desel, Christiane A. E., Davies, Jessica L., Evans, Hayley G., Avraham-Davidi, Inbal, Nguyen, Lan T., Dionne, Danielle A., Neumann, Anna E., Jensen, Lise Torp, Barber, Thomas R., Soilleux, Elizabeth, Carrington, Mary, McVean, Gil, Rozenblatt-Rosen, Orit, Regev, Aviv, Fugger, Lars

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Quantum computing for oncology von Ramesh, Siddhi, Tomesh, Teague, Riesenfeld, Samantha J, Chong, Frederic T, Pearson, Alexander T

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Beyond classification: gene-family phylogenies from shotgun metagenomic reads enable accurate community analysis von Riesenfeld, Samantha J, Pollard, Katherine S

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compact, in vivo screen of all 6-mers reveals drivers of tissue-specific expression and guides synthetic regulatory element design von Smith, Robin P, Riesenfeld, Samantha J, Holloway, Alisha K, Li, Qiang, Murphy, Karl K, Feliciano, Natalie M, Orecchia, Lorenzo, Oksenberg, Nir, Pollard, Katherine S, Ahituv, Nadav

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SORTING AND SELECTION IN POSETS von DASKALAKIS, Constantinos, KARP, Richard M, MOSSEL, Elchanan, RIESENFELD, Samantha J, VERBIN, Elad

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