Not logged in cyMAEv2: learning robust cell representations in mass cytometry without supervision Kim, Jaesik; Ionita, Matei; Lee, Matthew Eric; Leiby, Jacob S.; Huang, Yidi; Lee, Jonghyun; Nam, Yonghyun; McKeague, Michelle L.; Fang, Victoria; Apostolidis, Sokratis A.; Mathew, Divij; Shwetank; Pattekar, Ajinkya; Rangwala, Zahabia; Huang, Alexander; Bar-Or, Amit; Abramoff, Benjamin; Meyer, Nuala; Painter, Mark M.; Rhee, Rennie; Schuster, Stephen; Maseda, Damian; Greenplate, Allison R.; Wherry, E. John; Kim, Dokyoon Share Save
Representing immune profiles with self-supervised set representation learning Lee, Matthew Eric; Ionita, Matei; Kim, Jaesik; Lee, Jonghyun; Huang, Yidi; Nam, Yonghyun; McKeague, Michelle L.; Fang, Victoria; Apostolidis, Sokratis A.; Mathew, Divij; Shwetank; Pattekar, Ajinkya; Rangwala, Zahabia; Huang, Alexander; Bar-Or, Amit; Abramoff, Benjamin; Meyer, Nuala; Rhee, Rennie; Schuster, Stephen; Maseda, Damian; Greenplate, Allison R.; Kim, Dokyoon; Wherry, E. John Share Save
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Automated cytometric gating with human-level performance using bivariate segmentation Chen, Jiong; Ionita, Matei; Feng, Yanbo; Lu, Yinfeng; Orzechowski, Patryk; Garai, Sumita; Hassinger, Kenneth; Bao, Jingxuan; Wen, Junhao; Duong-Tran, Duy; Wagenaar, Joost; Mckeague, Michelle L.; Painter, Mark M.; Mathew, Divij; Pattekar, Ajinkya; Meyer, Nuala J.; Wherry, E. John; Greenplate, Allison R.; Shen, Li Share Save
Single-cell profiling reveals distinct γδ T cell subsets with protective and pathogenic roles in Ulcerative Colitis Mayer, L. S.; Arnold, J.; Reuter, N.; Pattekar, A.; Ohtani, T.; Bruder, K.; Ribeiro, M.; Siwicki, R.; Obwegs, D.; Stahl, E.; Kolter, J.; Mansoori Moghadam, Z.; Alaswad, A.; Li, Y.; Lewis, J. D.; Wu, G. D.; Bewtra, M.; Tomov, V. T.; Bengsch, B.; Thimme, R.; Hasselblatt, P.; Picelli, S.; Hofmann, M.; Sagar, S. Share Save
Cytometry masked autoencoder: An accurate and interpretable automated immunophenotyper Kim, Jaesik; Ionita, Matei; Lee, Matthew; Mckeague, Michelle L.; Pattekar, Ajinkya; Painter, Mark M.; Wagenaar, Joost; Truong, Van; Norton, Dylan T.; Mathew, Divij; Nam, Yonghyun; Apostolidis, Sokratis A.; Clendenin, Cynthia; Orzechowski, Patryk; Jung, Sang-Hyuk; Woerner, Jakob; Ittner, Caroline A. G.; Turner, Alexandra P.; Esperanza, Mika; Dunn, Thomas G.; Mangalmurti, Nilam S.; Reilly, John P.; Meyer, Nuala J.; Calfee, Carolyn S.; Liu, Kathleen D.; Matthy, Michael A.; Swigart, Lamorna Brown; Burnham, Ellen L.; Mckeehan, Jeffrey; Gandotra, Sheetal; Russel, Derek W.; Gibbs, Kevin W.; Thomas, Karl W.; Barot, Harsh; Greenplate, Allison R.; Wherry, E. John; Kim, Dokyoon Share Save
Immunologic Predictors of Vaccine Responsiveness in Patients With Lymphoma and Chronic Lymphocytic Leukemia Chong, Elise A.; Kumashie, Kingsley Gideon; Chong, Emeline R.; Fabrizio, Joseph; Gupta, Aditi; Svoboda, Jakub; Barta, Stefan K.; Walsh, Kristy M.; Napier, Ellen B.; Lundberg, Rachel K.; Nasta, Sunita D.; Gerson, James N.; Landsburg, Daniel J.; Gonzalez, Joyce; Gaano, Andrew; Weirick, Madison E.; Mcallister, Christopher M.; Awofolaju, Moses; John, Gavin N.; Kammerman, Shane C.; Novacek, Josef; Pajarillo, Raymone; Lundgreen, Kendall A.; Tanenbaum, Nicole; Gouma, Sigrid; Drapeau, Elizabeth M.; Adamski, Sharon; D'Andrea, Kurt; Pattekar, Ajinkya; Hicks, Amanda; Korte, Scott; Sharma, Harsh; Herring, Sarah; Williams, Justine C.; Hamilton, Jacob T.; Bates, Paul; Hensley, Scott E.; Luning Prak, Eline T.; Greenplate, Allison R.; Wherry, E. John; Schuster, Stephen J.; Ruella, Marco; Vella, Laura A. Share Save
Exhaustion of CD39-Expressing CD8+ T Cells in Crohn's Disease Is Linked to Clinical Outcome Globig, Anna-Maria; Mayer, Lena Sophie; Heeg, Maximilian; Andrieux, Geoffroy; Ku, Manching; Otto-Mora, Patricia; Hipp, Anna Veronika; Zoldan, Katharina; Pattekar, Ajinkya; Rana, Nisha; Schell, Christoph; Boerries, Melanie; Hofmann, Maike; Neumann-Haefelin, Christoph; Kuellmer, Armin; Schmidt, Arthur; Boettler, Tobias; Tomov, Vesselin; Thimme, Robert; Hasselblatt, Peter; Bengsch, Bertram Share Save
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Signaling Through FcγRIIA and the C5a-C5aR Pathway Mediate Platelet Hyperactivation in COVID-19 Apostolidis, Sokratis A.; Sarkar, Amrita; Giannini, Heather M.; Goel, Rishi R.; Mathew, Divij; Suzuki, Aae; Baxter, Amy E.; Greenplate, Allison R.; Alanio, Cecile; Abdel-Hakeem, Mohamed; Oldridge, Derek A.; Giles, Josephine R.; Wu, Jennifer E.; Chen, Zeyu; Huang, Yinghui Jane; Belman, Jonathan; Pattekar, Ajinkya; Manne, Sasikanth; Kuthuru, Oliva; Dougherty, Jeanette; Weiderhold, Brittany; Weisman, Ariel R.; Ittner, Caroline A. G.; Gouma, Sigrid; Dunbar, Debora; Frank, Ian; Huang, Alexander C.; Vella, Laura A.; Reilly, John P.; Hensley, Scott E.; Rauova, Lubica; Zhao, Liang; Meyer, Nuala J.; Poncz, Mortimer; Abrams, Charles S.; Wherry, E. John Share Save
Rapid induction of antigen-specific CD4+ T cells is associated with coordinated humoral and cellular immunity to SARS-CoV-2 mRNA vaccination Painter, Mark M.; Mathew, Divij; Goel, Rishi R.; Apostolidis, Sokratis A.; Pattekar, Ajinkya; Kuthuru, Oliva; Baxter, Amy E.; Herati, Ramin S.; Oldridge, Derek A.; Gouma, Sigrid; Hicks, Philip; Dysinger, Sarah; Lundgreen, Kendall A.; Kuri-Cervantes, Leticia; Adamski, Sharon; Hicks, Amanda; Korte, Scott; Giles, Josephine R.; Weirick, Madison E.; McAllister, Christopher M.; Dougherty, Jeanette; Long, Sherea; D'Andrea, Kurt; Hamilton, Jacob T.; Betts, Michael R.; Bates, Paul; Hensley, Scott E.; Grifoni, Alba; Weiskopf, Daniela; Sette, Alessandro; Greenplate, Allison R.; Wherry, E. John Share Save
Distinct antibody and memory B cell responses in SARS-CoV-2 naive and recovered individuals after mRNA vaccination Goel, Rishi R.; Apostolidis, Sokratis A.; Painter, Mark M.; Mathew, Divij; Pattekar, Ajinkya; Kuthuru, Oliva; Gouma, Sigrid; Hicks, Philip; Meng, Wenzhao; Rosenfeld, Aaron M.; Dysinger, Sarah; Lundgreen, Kendall A.; Kuri-Cervantes, Leticia; Adamski, Sharon; Hicks, Amanda; Korte, Scott; Oldridge, Derek A.; Baxter, Amy E.; Giles, Josephine R.; Weirick, Madison E.; McAllister, Christopher M.; Dougherty, Jeanette; Long, Sherea; D'Andrea, Kurt; Hamilton, Jacob T.; Betts, Michael R.; Prak, Eline T. Luning; Bates, Paul; Hensley, Scott E.; Greenplate, Allison R.; Wherry, E. John Share Save
Norovirus-Specific CD8+ T Cell Responses in Human Blood and Tissues Pattekar, Ajinkya; Mayer, Lena S.; Lau, Chi Wai; Liu, Chengyang; Palko, Olesya; Bewtra, Meenakshi; Consortium, Hpap; Lindesmith, Lisa C.; Brewer-Jensen, Paul D.; Baric, Ralph S.; Betts, Michael R.; Naji, Ali; Wherry, E. John; Tomov, Vesselin T. Share Save
Comprehensive mapping of immune perturbations associated with severe COVID-19 Kuri-Cervantes, Leticia; Pampena, Maria Betina; Meng, Wenzhao; Rosenfeld, Aaron M.; Ittner, Caroline A. G.; Weisman, Ariel R.; Agyekum, Roseline S.; Mathew, Divij; Baxter, Amy E.; Vella, Laura A.; Kuthuru, Oliva; Apostolidis, Sokratis A.; Bershaw, Luanne; Dougherty, Jeanette; Greenplate, Allison R.; Pattekar, Ajinkya; Kim, Justin; Han, Nicholas; Gouma, Sigrid; Weirick, Madison E.; Arevalo, Claudia P.; Bolton, Marcus J.; Goodwin, Eileen C.; Anderson, Elizabeth M.; Hensley, Scott E.; Jones, Tiffanie K.; Mangalmurti, Nilam S.; Prak, Eline T. Luning; Wherry, E. John; Meyer, Nuala J.; Betts, Michael R. Share Save
SARS-CoV-2 seroprevalence among parturient women in Philadelphia Flannery, Dustin D.; Gouma, Sigrid; Dhudasia, Miren B.; Mukhopadhyay, Sagori; Pfeifer, Madeline R.; Woodford, Emily C.; Gerber, Jeffrey S.; Arevalo, Claudia P.; Bolton, Marcus J.; Weirick, Madison E.; Goodwin, Eileen C.; Anderson, Elizabeth M.; Greenplate, Allison R.; Kim, Justin; Han, Nicholas; Pattekar, Ajinkya; Dougherty, Jeanette; Kuthuru, Oliva; Mathew, Divij; Baxter, Amy E.; Vella, Laura A.; Weaver, JoEllen; Verma, Anurag; Leite, Rita; Morris, Jeffrey S.; Rader, Daniel J.; Elovitz, Michal A.; Wherry, E. John; Puopolo, Karen M.; Hensley, Scott E. Share Save
Diminished TLR2-TLR9 mediated CD4+T cell responses are associated with increased inflammation in intraocular tuberculosis Sharma, Ravi Kumar; Sharma, Jyoti; Khan, Zafar K.; Pattekar, Ajinkya; Gupta, Vishali; Bansal, Reema; Sharma, Kusum; Aggarwal, Ashutosh Nath; Gupta, Amod; Sachdeva, Naresh Share Save
Differentiation and Protective Capacity of Virus-Specific CD8+ T Cells Suggest Murine Norovirus Persistence in an Immune-Privileged Enteric Niche Tomov, Vesselin T.; Palko, Olesya; Lau, Chi Wai; Pattekar, Ajinkya; Sun, Yuhang; Tacheva, Ralitza; Bengsch, Bertram; Manne, Sasikanth; Cosma, Gabriela L.; Eisenlohr, Laurence C.; Nice, Timothy J.; Virgin, Herbert W.; Wherry, E. John Share Save
HTLV-1 Infection and Neuropathogenesis in the Context of Rag1-/-γc-/- (RAG1-Hu) and BLT Mice Ginwala, Rashida; Caruso, Breanna; Khan, Zafar K.; Pattekar, Ajinkya; Chew, Glen M.; Corley, Michael J.; Loonawat, Ronak; Jacobson, Steven; Sreedhar, Sreesha; Ndhlovu, Lishomwa C.; Jain, Pooja Share Save
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