De novo emergence of a remdesivir resistance mutation during treatment of persistent SARS-CoV-2 infection in an immunocompromised patient: a case report
Gandhi, Shiv, Klein, Jonathan, Robertson, Alexander J., Peña-Hernández, Mario A., Lin, Michelle J., Roychoudhury, Pavitra, Lu, Peiwen, Fournier, John, Ferguson, David, Mohamed Bakhash, Shah A. K., Catherine Muenker, M., Srivathsan, Ariktha, Wunder, Elsio A., Kerantzas, Nicholas, Wang, Wenshuai, Lindenbach, Brett, Pyle, Anna, Wilen, Craig B., Ogbuagu, Onyema, Greninger, Alexander L., Iwasaki, Akiko, Schulz, Wade L., Ko, Albert I.
Published in Nature communications (17.03.2022)
Published in Nature communications (17.03.2022)
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In vivo antiviral host transcriptional response to SARS-CoV-2 by viral load, sex, and age
Lieberman, Nicole A P, Peddu, Vikas, Xie, Hong, Shrestha, Lasata, Huang, Meei-Li, Mears, Megan C, Cajimat, Maria N, Bente, Dennis A, Shi, Pei-Yong, Bovier, Francesca, Roychoudhury, Pavitra, Jerome, Keith R, Moscona, Anne, Porotto, Matteo, Greninger, Alexander L
Published in PLoS biology (08.09.2020)
Published in PLoS biology (08.09.2020)
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Hospitalization and mortality associated with SARS-CoV-2 viral clades in COVID-19
Nakamichi, Kenji, Shen, Jolie Z., Lee, Cecilia S., Lee, Aaron, Roberts, Emma A., Simonson, Paul D., Roychoudhury, Pavitra, Andriesen, Jessica, Randhawa, April K., Mathias, Patrick C., Greninger, Alex L., Jerome, Keith R., Van Gelder, Russell N.
Published in Scientific reports (26.02.2021)
Published in Scientific reports (26.02.2021)
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Gene editing and elimination of latent herpes simplex virus in vivo
Aubert, Martine, Strongin, Daniel E., Roychoudhury, Pavitra, Loprieno, Michelle A., Haick, Anoria K., Klouser, Lindsay M., Stensland, Laurence, Huang, Meei-Li, Makhsous, Negar, Tait, Alexander, De Silva Feelixge, Harshana S., Galetto, Roman, Duchateau, Philippe, Greninger, Alexander L., Stone, Daniel, Jerome, Keith R.
Published in Nature communications (18.08.2020)
Published in Nature communications (18.08.2020)
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SARS-CoV-2 ORF6 Disrupts Bidirectional Nucleocytoplasmic Transport through Interactions with Rae1 and Nup98
Addetia, Amin, Lieberman, Nicole A P, Phung, Quynh, Hsiang, Tien-Ying, Xie, Hong, Roychoudhury, Pavitra, Shrestha, Lasata, Loprieno, Michelle A, Huang, Meei-Li, Gale, Jr, Michael, Jerome, Keith R, Greninger, Alexander L
Published in mBio (13.04.2021)
Published in mBio (13.04.2021)
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Mutations in viral nucleocapsid protein and endoRNase are discovered to associate with COVID19 hospitalization risk
Zhao, Lue Ping, Roychoudhury, Pavitra, Gilbert, Peter, Schiffer, Joshua, Lybrand, Terry P., Payne, Thomas H., Randhawa, April, Thiebaud, Sara, Mills, Margaret, Greninger, Alex, Pyo, Chul-Woo, Wang, Ruihan, Li, Renyu, Thomas, Alexander, Norris, Brandon, Nelson, Wyatt C., Jerome, Keith R., Geraghty, Daniel E.
Published in Scientific reports (24.01.2022)
Published in Scientific reports (24.01.2022)
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Host–pathogen dynamics in longitudinal clinical specimens from patients with COVID-19
Lin, Michelle J., Rachleff, Victoria M., Xie, Hong, Shrestha, Lasata, Lieberman, Nicole A. P., Peddu, Vikas, Addetia, Amin, Casto, Amanda M., Breit, Nathan, Mathias, Patrick C., Huang, Meei-Li, Jerome, Keith R., Greninger, Alexander L., Roychoudhury, Pavitra
Published in Scientific reports (07.04.2022)
Published in Scientific reports (07.04.2022)
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Author Correction: Positive selection underlies repeated knockout of ORF8 in SARS-CoV-2 evolution
Wagner, Cassia, Kistler, Kathryn E., Perchetti, Garrett A., Baker, Noah, Frisbie, Lauren A., Torres, Laura Marcela, Aragona, Frank, Yun, Cory, Figgins, Marlin, Greninger, Alexander L., Cox, Alex, Oltean, Hanna N., Roychoudhury, Pavitra, Bedford, Trevor
Published in Nature communications (18.09.2024)
Published in Nature communications (18.09.2024)
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Positive selection underlies repeated knockout of ORF8 in SARS-CoV-2 evolution
Wagner, Cassia, Kistler, Kathryn E., Perchetti, Garrett A., Baker, Noah, Frisbie, Lauren A., Torres, Laura Marcela, Aragona, Frank, Yun, Cory, Figgins, Marlin, Greninger, Alexander L., Cox, Alex, Oltean, Hanna N., Roychoudhury, Pavitra, Bedford, Trevor
Published in Nature communications (13.04.2024)
Published in Nature communications (13.04.2024)
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Comparing molnupiravir and nirmatrelvir/ritonavir efficacy and the effects on SARS-CoV-2 transmission in animal models
Cox, Robert M., Lieber, Carolin M., Wolf, Josef D., Karimi, Amirhossein, Lieberman, Nicole A. P., Sticher, Zachary M., Roychoudhury, Pavitra, Andrews, Meghan K., Krueger, Rebecca E., Natchus, Michael G., Painter, George R., Kolykhalov, Alexander A., Greninger, Alexander L., Plemper, Richard K.
Published in Nature communications (07.08.2023)
Published in Nature communications (07.08.2023)
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Author Correction: Mutations in viral nucleocapsid protein and endoRNase are discovered to associate with COVID19 hospitalization risk
Zhao, Lue Ping, Roychoudhury, Pavitra, Gilbert, Peter, Schiffer, Joshua, Lybrand, Terry P., Payne, Thomas H., Randhawa, April, Thiebaud, Sara, Mills, Margaret, Greninger, Alex, Pyo, Chul-Woo, Wang, Ruihan, Li, Renyu, Thomas, Alexander, Norris, Brandon, Nelson, Wyatt C., Jerome, Keith R., Geraghty, Daniel E.
Published in Scientific reports (22.02.2022)
Published in Scientific reports (22.02.2022)
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Predicting infectivity: comparing four PCR‐based assays to detect culturable SARS‐CoV‐2 in clinical samples
Bruce, Emily A, Mills, Margaret G, Sampoleo, Reigran, Perchetti, Garrett A, Huang, Meei‐Li, Despres, Hannah W, Schmidt, Madaline M, Roychoudhury, Pavitra, Shirley, David J, Jerome, Keith R, Greninger, Alexander L, Botten, Jason W
Published in EMBO molecular medicine (07.02.2022)
Published in EMBO molecular medicine (07.02.2022)
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Viral gene drive spread during herpes simplex virus 1 infection in mice
Walter, Marius, Haick, Anoria K., Riley, Rebeccah, Massa, Paola A., Strongin, Daniel E., Klouser, Lindsay M., Loprieno, Michelle A., Stensland, Laurence, Santo, Tracy K., Roychoudhury, Pavitra, Aubert, Martine, Taylor, Matthew P., Jerome, Keith R., Verdin, Eric
Published in Nature communications (17.09.2024)
Published in Nature communications (17.09.2024)
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Tissue memory CD4+ T cells expressing IL-7 receptor-alpha (CD127) preferentially support latent HIV-1 infection
Hsiao, Feng, Frouard, Julie, Gramatica, Andrea, Xie, Guorui, Telwatte, Sushama, Lee, Guinevere Q, Roychoudhury, Pavitra, Schwarzer, Roland, Luo, Xiaoyu, Yukl, Steven A, Lee, Sulggi, Hoh, Rebecca, Deeks, Steven G, Jones, R Brad, Cavrois, Marielle, Greene, Warner C, Roan, Nadia R
Published in PLoS pathogens (01.04.2020)
Published in PLoS pathogens (01.04.2020)
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AAV-mediated delivery of zinc finger nucleases targeting hepatitis B virus inhibits active replication
Weber, Nicholas D, Stone, Daniel, Sedlak, Ruth Hall, De Silva Feelixge, Harshana S, Roychoudhury, Pavitra, Schiffer, Joshua T, Aubert, Martine, Jerome, Keith R
Published in PloS one (14.05.2014)
Published in PloS one (14.05.2014)
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Clinical and Genomic Epidemiology of Coxsackievirus A21 and Enterovirus D68 in Homeless Shelters, King County, Washington, USA, 2019-2021
Cox, Sarah N, Casto, Amanda M, Franko, Nicholas M, Chow, Eric J, Han, Peter D, Gamboa, Luis, Pfau, Brian, Xie, Hong, Kong, Kevin, Sereewit, Jaydee, Rolfes, Melissa A, Mosites, Emily, Uyeki, Timothy M, Greninger, Alexander L, Carone, Marco, Shim, M Mia, Bedford, Trevor, Shendure, Jay, Boeckh, Michael, Englund, Janet A, Starita, Lea M, Roychoudhury, Pavitra, Chu, Helen Y
Published in Emerging infectious diseases (01.11.2024)
Published in Emerging infectious diseases (01.11.2024)
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Convergence of immune escape strategies highlights plasticity of SARS-CoV-2 spike
Yu, Xiaodi, Juraszek, Jarek, Rutten, Lucy, Bakkers, Mark J G, Blokland, Sven, Melchers, Jelle M, van den Broek, Niels J F, Verwilligen, Annemiek Y W, Abeywickrema, Pravien, Vingerhoets, Johan, Neefs, Jean-Marc, Bakhash, Shah A Mohamed, Roychoudhury, Pavitra, Greninger, Alex, Sharma, Sujata, Langedijk, Johannes P M
Published in PLoS pathogens (01.05.2023)
Published in PLoS pathogens (01.05.2023)
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Herpes simplex virus lymphadenitis is associated with tumor reduction in a patient with chronic lymphocytic leukemia
Chang, Andres, Sholukh, Anton M, Wieland, Andreas, Jaye, David L, Carrington, Mary, Huang, Meei-Li, Xie, Hong, Jerome, Keith R, Roychoudhury, Pavitra, Greninger, Alexander L, Koff, Jean L, Cohen, Jonathon B, Koelle, David M, Corey, Lawrence, Flowers, Christopher R, Ahmed, Rafi
Published in The Journal of clinical investigation (15.09.2022)
Published in The Journal of clinical investigation (15.09.2022)
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CRISPR-Cas9 gene editing of hepatitis B virus in chronically infected humanized mice
Stone, Daniel, Long, Kelly R., Loprieno, Michelle A., De Silva Feelixge, Harshana S., Kenkel, Elizabeth J., Liley, R. Matt, Rapp, Stephen, Roychoudhury, Pavitra, Nguyen, Thuy, Stensland, Laurence, Colón-Thillet, Rossana, Klouser, Lindsay M., Weber, Nicholas D., Le, Connie, Wagoner, Jessica, Goecker, Erin A., Li, Alvason Zhenhua, Eichholz, Karsten, Corey, Lawrence, Tyrrell, D. Lorne, Greninger, Alexander L., Huang, Meei-Li, Polyak, Stephen J., Aubert, Martine, Sagartz, John E., Jerome, Keith R.
Published in Molecular therapy. Methods & clinical development (12.03.2021)
Published in Molecular therapy. Methods & clinical development (12.03.2021)
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