OpenCyto: an open source infrastructure for scalable, robust, reproducible, and automated, end-to-end flow cytometry data analysis von Finak, Greg, Frelinger, Jacob, Jiang, Wenxin, Newell, Evan W, Ramey, John, Davis, Mark M, Kalams, Spyros A, De Rosa, Stephen C, Gottardo, Raphael

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Characteristics of the earliest cross-neutralizing antibody response to HIV-1 von Mikell, Iliyana, Sather, D Noah, Kalams, Spyros A, Altfeld, Marcus, Alter, Galit, Stamatatos, Leonidas

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DC-Dielectrophoretic separation of biological cells by size von Kang, Yuejun, Li, Dongqing, Kalams, Spyros A., Eid, Josiane E.

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Deep sequence analysis of HIV adaptation following vertical transmission reveals the impact of immune pressure on the evolution of HIV von Currenti, Jennifer, Chopra, Abha, John, Mina, Leary, Shay, McKinnon, Elizabeth, Alves, Eric, Pilkinton, Mark, Smith, Rita, Barnett, Louise, McDonnell, Wyatt J, Lucas, Michaela, Noel, Francine, Mallal, Simon, Conrad, Joseph A, Kalams, Spyros A, Gaudieri, Silvana

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Safety and immunogenicity of an HIV-1 gag DNA vaccine with or without IL-12 and/or IL-15 plasmid cytokine adjuvant in healthy, HIV-1 uninfected adults von Kalams, Spyros A, Parker, Scott, Jin, Xia, Elizaga, Marnie, Metch, Barbara, Wang, Maggie, Hural, John, Lubeck, Michael, Eldridge, John, Cardinali, Massimo, Blattner, William A, Sobieszczyk, Magda, Suriyanon, Vinai, Kalichman, Artur, Weiner, David B, Baden, Lindsey R

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Multiomic single-cell sequencing defines tissue-specific responses in Stevens-Johnson syndrome and toxic epidermal necrolysis von Gibson, Andrew, Ram, Ramesh, Gangula, Rama, Li, Yueran, Mukherjee, Eric, Palubinsky, Amy M., Campbell, Chelsea N., Thorne, Michael, Konvinse, Katherine C., Choshi, Phuti, Deshpande, Pooja, Pedretti, Sarah, Fear, Mark W., Wood, Fiona M., O’Neil, Richard T., Wanjalla, Celestine N., Kalams, Spyros A., Gaudieri, Silvana, Lehloenya, Rannakoe J., Bailin, Samuel S., Chopra, Abha, Trubiano, Jason A., Peter, Jonny G., Mallal, Simon A., Phillips, Elizabeth J.

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Adaptation to HLA-associated immune pressure over the course of HIV infection and in circulating HIV-1 strains von Alves, Eric, Al-Kaabi, Marwah, Keane, Niamh M, Leary, Shay, Almeida, Coral-Ann M, Deshpande, Pooja, Currenti, Jennifer, Chopra, Abha, Smith, Rita, Castley, Alison, Mallal, Simon, Kalams, Spyros A, Gaudieri, Silvana, John, Mina

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Changes in subcutaneous white adipose tissue cellular composition and molecular programs underlie glucose intolerance in persons with HIV von Bailin, Samuel S, Kropski, Jonathan A, Gangula, Rama D, Hannah, LaToya, Simmons, Joshua D, Mashayekhi, Mona, Ye, Fei, Fan, Run, Mallal, Simon, Warren, Christian M, Kalams, Spyros A, Gabriel, Curtis L, Wanjalla, Celestine N, Koethe, John R

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Multiparameter analysis of stimulated human peripheral blood mononuclear cells: A comparison of mass and fluorescence cytometry von Nicholas, Katherine J., Greenplate, Allison R., Flaherty, David K., Matlock, Brittany K., Juan, Juan San, Smith, Rita M., Irish, Jonathan M., Kalams, Spyros A.

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CD4 + T cells expressing CX3CR1, GPR56, with variable CD57 are associated with cardiometabolic diseases in persons with HIV von Wanjalla, Celestine N, Gabriel, Curtis L, Fuseini, Hubaida, Bailin, Samuel S, Mashayekhi, Mona, Simmons, Joshua, Warren, Christopher M, Glass, David R, Oakes, Jared, Gangula, Rama, Wilfong, Erin, Priest, Stephen, Temu, Tecla, Newell, Evan W, Pakala, Suman, Kalams, Spyros A, Gianella, Sara, Smith, David, Harrison, David G, Mallal, Simon A, Koethe, John R

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Tracking of activated cTfh cells following sequential influenza vaccinations reveals transcriptional profile of clonotypes driving a vaccine-induced immune response von Currenti, Jennifer, Simmons, Joshua, Oakes, Jared, Gaudieri, Silvana, Warren, Christian M, Gangula, Rama, Alves, Eric, Ram, Ramesh, Leary, Shay, Armitage, Jesse D, Smith, Rita M, Chopra, Abha, Halasa, Natasha B, Pilkinton, Mark A, Kalams, Spyros A

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Increased breadth of HIV-1 neutralization achieved by diverse antibody clones each with limited neutralization breadth von Chukwuma, Valentine U, Kose, Nurgun, Sather, D Noah, Sapparapu, Gopal, Falk, Rachel, King, Hannah, Singh, Vidisha, Lampley, Rebecca, Malherbe, Delphine C, Ditto, Noah T, Sullivan, Jonathan T, Barnes, Trevor, Doranz, Benjamin J, Labranche, Celia C, Montefiori, David C, Kalams, Spyros A, Haigwood, Nancy L, Crowe, Jr, James E

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Adipose Tissue in Persons With HIV Is Enriched for CD4 + T Effector Memory and T Effector Memory RA + Cells, Which Show Higher CD69 Expression and CD57, CX3CR1, GPR56 Co-expression... von Wanjalla, Celestine N, McDonnell, Wyatt J, Barnett, Louise, Simmons, Joshua D, Furch, Briana D, Lima, Morgan C, Woodward, Beverly O, Fan, Run, Fei, Ye, Baker, Paxton G, Ram, Ramesh, Pilkinton, Mark A, Mashayekhi, Mona, Brown, Nancy J, Mallal, Simon A, Kalams, Spyros A, Koethe, John R

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Cross-Reactivity to Mutated Viral Immune Targets Can Influence CD8+ T Cell Functionality: An Alternative Viral Adaptation Strategy von Currenti, Jennifer, Law, Becker M. P., Qin, Kai, John, Mina, Pilkinton, Mark A., Bansal, Anju, Leary, Shay, Ram, Ramesh, Chopra, Abha, Gangula, Rama, Yue, Ling, Warren, Christian, Barnett, Louise, Alves, Eric, McDonnell, Wyatt J., Sooda, Anuradha, Heath, Sonya L., Mallal, Simon, Goepfert, Paul, Kalams, Spyros A., Gaudieri, Silvana

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B cell responses to HIV antigen are a potent correlate of viremia in HIV-1 infection and improve with PD-1 blockade von Nicholas, Katherine J, Zern, Emily K, Barnett, Louise, Smith, Rita M, Lorey, Shelly L, Copeland, Courtney A, Sadagopal, Shanmugalakshmi, Kalams, Spyros A

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Cellular Recognition of Mycobacterium tuberculosis ESAT-6 and KatG Peptides in Systemic Sarcoidosis von Drake, Wonder P, Dhason, Mary S, Nadaf, Michele, Shepherd, Bryan E, Vadivelu, Sangeetha, Hajizadeh, Rana, Newman, Lee S, Kalams, Spyros A

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Leptin Promotes Greater Ki67 Expression in CD4 + T Cells From Obese Compared to Lean Persons Living With HIV von Fuseini, Hubaida, Smith, Rita, Nochowicz, Cindy H, Simmons, Joshua D, Hannah, LaToya, Wanjalla, Celestine N, Gabriel, Curtis L, Mashayekhi, Mona, Bailin, Samuel S, Castilho, Jessica L, Hasty, Alyssa H, Koethe, John R, Kalams, Spyros A

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Early CD4+ T Cell Responses Are Associated with Subsequent CD8+ T Cell Responses to an rAd5-Based Prophylactic Prime-Boost HIV Vaccine Strategy von Lhomme, Edouard, Richert, Laura, Moodie, Zoe, Pasin, Chloé, Kalams, Spyros A, Morgan, Cecilia, Self, Steve, De Rosa, Stephen C, Thiébaut, Rodolphe

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Increased Frequency of Regulatory T Cells and T Lymphocyte Activation in Persons with Previously Treated Extrapulmonary Tuberculosis von de Almeida, Alexandre S, Fiske, Christina T, Sterling, Timothy R, Kalams, Spyros A

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Increased Frequency of Memory CD4+T-Cell Responses in Individuals With Previously Treated Extrapulmonary Tuberculosis von Barreto-Duarte, Beatriz, Sterling, Timothy R., Fiske, Christina T., Almeida, Alexandre, Nochowicz, Cynthia H., Smith, Rita M., Barnett, Louise, Warren, Christian, Blackman, Amondrea, e Silva, Jose Roberto, Andrade, Bruno B., Kalams, Spyros A.

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