Primary nasal influenza infection rewires tissue-scale memory response dynamics

Authors: Kazer, Samuel W., Match, Colette Matysiak, Langan, Erica M., Messou, Marie-Angèle, LaSalle, Thomas J., O’Leary, Elise, Marbourg, Jessica, Naughton, Katherine, von Andrian, Ulrich H., Ordovas-Montanes, Jose

Source: In Immunity 13 August 2024 57(8):1955-1974

The Omics Landscape of Long COVID—A Comprehensive Systematic Review to Advance Biomarker, Target and Drug Discovery.

Authors: Baalbaki, Nadia, Slob, Elise M. A., Kazer, Samuel W., I Abdel‐Aziz, Mahmoud, Bogaard, Harm Jan, Golebski, Korneliusz, Maitland‐van der Zee, Anke H.

Source: Allergy; Apr2025, Vol. 80 Issue 4, p932-948, 17p

Subject Terms: BIOMARKERS, DRUG discovery, HUMAN microbiota, CHRONIC diseases, PATHOLOGICAL physiology, POST-acute COVID-19 syndrome, MULTIOMICS

Evolution and Diversity of Immune Responses during Acute HIV Infection

Authors: Kazer, Samuel W., Walker, Bruce D., Shalek, Alex K.

Source: In Immunity 17 November 2020 53(5):908-924

Innate Lymphoid Cell Activation and Sustained Depletion in Blood and Tissue of Children Infected with HIV from Birth Despite Antiretroviral Therapy

Authors: Singh, Alveera, Kazer, Samuel W., Roider, Julia, Krista, Kami C., Millar, Jane, Asowata, Osaretin E., Ngoepe, Abigail, Ramsuran, Duran, Fardoos, Rabiah, Ardain, Amanda, Muenchhoff, Maximilian, Kuhn, Warren, Karim, Farina, Ndung’u, Thumbi, Shalek, Alex K., Goulder, Philip, Leslie, Alasdair, Kløverpris, Henrik N.

Source: In Cell Reports 15 September 2020 32(11)

SARS-CoV-2 Receptor ACE2 Is an Interferon-Stimulated Gene in Human Airway Epithelial Cells and Is Detected in Specific Cell Subsets across Tissues

Authors: Banovich, Nicholas, Barbry, Pascal, Brazma, Alvis, Desai, Tushar, Duong, Thu Elizabeth, Eickelberg, Oliver, Falk, Christine, Farzan, Michael, Glass, Ian, Haniffa, Muzlifah, Horvath, Peter, Hung, Deborah, Kaminski, Naftali, Krasnow, Mark, Kropski, Jonathan A., Kuhnemund, Malte, Lafyatis, Robert, Lee, Haeock, Leroy, Sylvie, Linnarson, Sten, Lundeberg, Joakim, Meyer, Kerstin, Misharin, Alexander, Nawijn, Martijn, Nikolic, Marko Z., Ordovas-Montanes, Jose, Pe’er, Dana, Powell, Joseph, Quake, Stephen, Rajagopal, Jay, Tata, Purushothama Rao, Rawlins, Emma L., Regev, Aviv, Reyfman, Paul A., Rojas, Mauricio, Rosen, Orit, Saeb-Parsy, Kourosh, Samakovlis, Christos, Schiller, Herbert, Schultze, Joachim L., Seibold, Max A., Shalek, Alex K., Shepherd, Douglas, Spence, Jason, Spira, Avrum, Sun, Xin, Teichmann, Sarah, Theis, Fabian, Tsankov, Alexander, van den Berge, Maarten, von Papen, Michael, Whitsett, Jeffrey, Xavier, Ramnik, Xu, Yan, Zaragosi, Laure-Emmanuelle, Zhang, Kun, 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., II, 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., Theis, Fabian J., Schiller, Herbert B., 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

Source: In Cell 28 May 2020 181(5):1016-1035

Germline-Encoded Affinity for Cognate Antigen Enables Vaccine Amplification of a Human Broadly Neutralizing Response against Influenza Virus

Authors: Sangesland, Maya, Ronsard, Larance, Kazer, Samuel W., Bals, Julia, Boyoglu-Barnum, Seyhan, Yousif, Ashraf S., Barnes, Ralston, Feldman, Jared, Quirindongo-Crespo, Maricel, McTamney, Patrick M., Rohrer, Daniel, Lonberg, Nils, Chackerian, Bryce, Graham, Barney S., Kanekiyo, Masaru, Shalek, Alex K., Lingwood, Daniel

Source: In Immunity 15 October 2019 51(4):735-749

Antiviral CD8+ T Cells Restricted by Human Leukocyte Antigen Class II Exist during Natural HIV Infection and Exhibit Clonal Expansion

Authors: Ranasinghe, Srinika, Lamothe, Pedro A., Soghoian, Damien Z., Kazer, Samuel W., Cole, Michael B., Shalek, Alex K., Yosef, Nir, Jones, R. Brad, Donaghey, Faith, Nwonu, Chioma, Jani, Priya, Clayton, Gina M., Crawford, Frances, White, Janice, Montoya, Alana, Power, Karen, Allen, Todd M., Streeck, Hendrik, Kaufmann, Daniel E., Picker, Louis J., Kappler, John W., Walker, Bruce D.

Source: In Immunity 18 October 2016 45(4):917-930

Innate Lymphoid Cells Are Depleted Irreversibly during Acute HIV-1 Infection in the Absence of Viral Suppression

Authors: Kløverpris, Henrik N., Kazer, Samuel W., Mjösberg, Jenny, Mabuka, Jenniffer M., Wellmann, Amanda, Ndhlovu, Zaza, Yadon, Marisa C., Nhamoyebonde, Shepherd, Muenchhoff, Maximilian, Simoni, Yannick, Andersson, Frank, Kuhn, Warren, Garrett, Nigel, Burgers, Wendy A., Kamya, Philomena, Pretorius, Karyn, Dong, Krista, Moodley, Amber, Newell, Evan W., Kasprowicz, Victoria, Abdool Karim, Salim S., Goulder, Philip, Shalek, Alex K., Walker, Bruce D., Ndung’u, Thumbi, Leslie, Alasdair

Source: In Immunity 16 February 2016 44(2):391-405

Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq

Authors: Tirosh, Itay, Izar, Benjamin, Prakadan, Sanjay M., Wadsworth, Marc H., Treacy, Daniel, Trombetta, John J., Rotem, Asaf, Rodman, Christopher, Lian, Christine, Murphy, George, Fallahi-Sichani, Mohammad, Dutton-Regester, Ken, Lin, Jia-Ren, Cohen, Ofir, Shah, Parin, Lu, Diana, Genshaft, Alex S., Hughes, Travis K., Ziegler, Carly G. K., Kazer, Samuel W., Gaillard, Aleth, Kolb, Kellie E., Villani, Alexandra-Chloé, Johannessen, Cory M., Andreev, Aleksandr Y., Van Allen, Eliezer M., Bertagnolli, Monica, Sorger, Peter K., Sullivan, Ryan J., Flaherty, Keith T., Frederick, Dennie T., Jané-Valbuena, Judit, Yoon, Charles H., Rozenblatt-Rosen, Orit, Shalek, Alex K., Regev, Aviv, Garraway, Levi A.

Source: Science, 2016 Apr 01. 352(6282), 189-196.

Access URL: http://www.jstor.org/stable/24744196

Multiplexed barcoded CRISPR-Cas9 screening enabled by CombiGEM

Authors: Wong, Alan S. L., Choi, Gigi C. G., Cui, Cheryl H., Pregernig, Gabriela, Milani, Pamela, Adam, Miriam, Perli, Samuel D., Kazer, Samuel W., Gaillard, Aleth, Hermann, Mario, Shalek, Alex K., Fraenkel, Ernest, Lu, Timothy K.

Source: Proceedings of the National Academy of Sciences of the United States of America, 2016 Mar 01. 113(9), 2544-2549.

Access URL: https://www.jstor.org/stable/26468553

Pro-inflammatory feedback loops define immune responses to pathogenic Lentivirus infection.

Authors: Wilk, Aaron J., Marceau, Joshua O., Kazer, Samuel W., Fleming, Ira, Miao, Vincent N., Galvez-Reyes, Jennyfer, Kimata, Jason T., Shalek, Alex K., Holmes, Susan, Overbaugh, Julie, Blish, Catherine A.

Source: Genome Medicine; 2/5/2024, Vol. 16 Issue 1, p1-22, 22p

Subject Terms: HIV, LENTIVIRUS diseases, IMMUNE response, TRANSCRIPTOMES, DISEASE progression

Corrections: Probing the relative orientation of molecules bound to DNA through controlled interference using second-harmonic generation

Authors: Doughty, Benjamin, Rao, Yi, Kazer, Samuel W., Kwok, Sheldon J. J., Turro, Nicholas J., Eisenthal, Kenneth B.

Source: Proceedings of the National Academy of Sciences of the United States of America, 2013 Jul 01. 110(27), 11212-11212.

Access URL: https://www.jstor.org/stable/42706401

Probing the relative orientation of molecules bound to DNA through controlled interference using second-harmonic generation

Authors: Doughty, Benjamin, Rao, Yi, Kazer, Samuel W., Kwok, Sheldon J. J., Turro, Nicholas J., Eisenthal, Kenneth B.

Source: Proceedings of the National Academy of Sciences of the United States of America, 2013 Apr 01. 110(15), 5756-5758.

Access URL: https://www.jstor.org/stable/42590300

Binding and cleavage of DNA with the restriction enzyme EcoR1 using time-resolved second harmonic generation

Authors: Doughty, Benjamin, Kazer, Samuel W., Eisenthal, Kenneth B.

Source: Proceedings of the National Academy of Sciences of the United States of America, 2011 Dec . 108(50), 19979-19984.

Access URL: https://www.jstor.org/stable/23060061

A Single Human VH-gene Allows for a Broad-Spectrum Antibody Response Targeting Bacterial Lipopolysaccharides in the Blood

Authors: Sangesland, Maya, Yousif, Ashraf S., Ronsard, Larance, Kazer, Samuel W., Zhu, Alex Lee, Gatter, G. James, Hayward, Matthew R., Barnes, Ralston M., Quirindongo-Crespo, Maricel, Rohrer, Daniel, Lonberg, Nils, Kwon, Douglas, Shalek, Alex K., Lingwood, Daniel

Source: In Cell Reports 25 August 2020 32(8)

HIV specific CD8⁺ TRM-like cells in tonsils express exhaustive signatures in the absence of natural HIV control.

Authors: Fardoos, Rabiah, Nyquist, Sarah K., Asowata, Osaretin E., Kazer, Samuel W., Singh, Alveera, Ngoepe, Abigail, Giandhari, Jennifer, Mthabela, Ntombifuthi, Ramjit, Dirhona, Singh, Samita, Karim, Farina, Buus, Søren, Anderson, Frank, Porterfield, J. Zachary, Sibiya, Andile L., Bipath, Rishan, Moodley, Kumeshan, Kuhn, Warren, Berger, Bonnie, Son Nguyen

Source: Frontiers in Immunology; 10/18/2022, Vol. 13, p01-19, 19p

Subject Terms: TONSILS, HIV, LYMPHOID tissue, NATURAL immunity, GERMINAL centers

Geographic Terms: SOUTH Africa

Are we there yet? An immune field trip through human embryonic development

Authors: Niederlova, Veronika, Kazer, Samuel W., Ordovas-Montanes, Jose

Source: In Immunity 12 July 2022 55(7):1153-1155

Targeting Treg cells with GITR activation alleviates resistance to immunotherapy in murine glioblastomas.

Authors: Amoozgar, Zohreh, Kloepper, Jonas, Ren, Jun, Tay, Rong En, Kazer, Samuel W., Kiner, Evgeny, Krishnan, Shanmugarajan, Posada, Jessica M., Ghosh, Mitrajit, Mamessier, Emilie, Wong, Christina, Ferraro, Gino B., Batista, Ana, Wang, Nancy, Badeaux, Mark, Roberge, Sylvie, Xu, Lei, Huang, Peigen, Shalek, Alex K., Fukumura, Dai

Source: Nature Communications; 5/11/2021, Vol. 12 Issue 1, p1-16, 16p

Subject Terms: SUPPRESSOR cells, IMMUNOLOGIC memory, IMMUNOSUPPRESSION, PROGRAMMED cell death 1 receptors, GLIOBLASTOMA multiforme, CELL differentiation

MR1-Restricted MAIT Cells From The Human Lung Mucosal Surface Have Distinct Phenotypic, Functional, and Transcriptomic Features That Are Preserved in HIV Infection.

Authors: Khuzwayo, Sharon, Mthembu, Maphe, Meermeier, Erin W., Prakadan, Sanjay M., Kazer, Samuel W., Bassett, Thierry, Nyamande, Kennedy, Khan, Dilshaad Fakey, Maharaj, Priya, Mitha, Mohammed, Suleman, Moosa, Mhlane, Zoey, Ramjit, Dirhona, Karim, Farina, Shalek, Alex K., Lewinsohn, David M., Ndung'u, Thumbi, Wong, Emily B.

Source: Frontiers in Immunology; 4/9/2021, Vol. 11, pN.PAG-N.PAG, 14p

Subject Terms: HIV infections, PHENOTYPES, T cell receptors, PERIPHERAL circulation, MAJOR histocompatibility complex, LUNGS

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