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  1. 1.   Multi-objective latent space optimization of generative molecular design models
  2. Abeer, A N M Nafiz; Urban, Nathan M; Weil,Michael; Alexander, Francis J; Yoon, Byung-Jun
  3. Patterns (New York, N.Y.). 2024, Oct 11; 5(10): 101042.
  1. 2.   Novel subtypes of severe COVID-19 respiratory failure based on biological heterogeneity: a secondary analysis of a randomized controlled trial
  2. Alipanah-Lechner, Narges; Hurst-Hopf, James; Delucchi, Kevin; Swigart, Lamorna; Willmore, Andrew; LaCombe, Benjamin; Dewar,Robin; Lane, H Clifford; Lallemand, Perrine; Liu, Kathleen D; Esserman, Laura; Matthay, Michael A; Calfee, Carolyn S
  3. Critical Care (London, England). 2024, Feb 21; 28(1): 56.
  1. 3.   Multifaceted roles for STAT3 in gammaherpesvirus latency revealed through in vivo B cell knockout models
  2. Hogan, Chad H; Owens, Shana M; Reynoso, Glennys V; Liao, Yifei; Meyer,Thomas; Zelazowska, Monika A; Liu, Bin; Li, Xiaofan; Grosskopf, Anna K; Khairallah, Camille; Kirillov, Varvara; Reich, Nancy C; Sheridan, Brian S; McBride, Kevin M; Gewurz, Benjamin E; Hickman, Heather D; Forrest, J Craig; Krug, Laurie T
  3. mBio. 2024, Jan 03; e0299823.
  1. 4.   Transient viral replication during analytical treatment interruptions in SIV infected macaques can alter the rebound-competent viral reservoir
  2. Immonen,Taina; Fennessey,Christine; Lipkey,Leslie; Thorpe, Abigail; Del Prete,Greg; Lifson,Jeffrey; Davenport, Miles P.; Keele,Brandon
  3. PLOS PATHOGENS. 2021, Jun; 17(6):
  1. 5.   Antibody-mediated depletion of viral reservoirs is limited in SIV-infected macaques treated early with antiretroviral therapy
  2. Swanstrom,Adrienne; Immonen,Taina; Oswald,Kelli; Pyle,Cathi; Thomas,James; Bosche,Bj; Silipino,Lorna; Hull,Mike; Newman,Laura; Coalter, Vicky; Wiles,Adam; Wiles,Rodney; Kiser,Jacob; Morcock,David; Shoemaker,Rebecca; Fast,Randy; Breed,Matthew; Kramer,Josh; Donohue,Duncan; Malys,Tyler; Fennessey,Christine; Trubey,Charles; Deleage,Claire; Estes, Jacob D.; Lifson,Jeffrey; Keele,Brandon; Del Prete,Greg
  3. The Journal of Clinical Investigation. 2021, Mar 15; 131(6):
  1. 6.   HIV-1 viremia not suppressible by antiretroviral therapy can originate from large T cell clones producing infectious virus
  2. Halvas, Elias K; Joseph, Kevin W; Brandt, Leah D; Guo,Amber; Sobolewski, Michele D; Jacobs, Jana L; Tumiotto, Camille; Bui, John K; Cyktor, Joshua C; Keele,Brandon; Morse, Gene D; Bale, Michael J; Shao,Wei; Kearney,Mary; Coffin, John M; Rausch,Jason; Wu,Xiaolin; Hughes,Stephen; Mellors, John W
  3. The Journal of clinical investigation. 2020, NOV 2; 130(11): 5847-5857.
  1. 7.   Distinct viral reservoirs in individuals with spontaneous control of HIV-1
  2. Jiang, Chenyang; Lian, Xiaodong; Gao, Ce; Sun, Xiaoming; Einkauf, Kevin B; Chevalier, Joshua M; Chen, Samantha M Y; Hua, Stephane; Rhee, Ben; Chang, Kaylee; Blackmer, Jane E; Osborn, Matthew; Peluso, Michael J; Hoh, Rebecca; Somsouk, Ma; Milush, Jeffrey; Bertagnolli, Lynn N; Sweet, Sarah E; Varriale, Joseph A; Burbelo, Peter D; Chun, Tae-Wook; Laird, Gregory M; Serrao, Erik; Engelman, Alan N; Carrington,Mary; Siliciano, Robert F; Siliciano, Janet M; Deeks, Steven G; Walker, Bruce D; Lichterfeld, Mathias; Yu, Xu G
  3. Nature. 2020, Aug 26;
  1. 8.   The gift of a lifetime: analysis of HIV at autopsy
  2. Maldarelli,Frank
  3. JOURNAL OF CLINICAL INVESTIGATION. 2020, Apr 1; 130(4): 1611-1614.
  1. 9.   Assessing the impact of AGS-004, a dendritic cell-based immunotherapy, and vorinostat on persistent HIV-1 Infection
  2. Gay, Cynthia L; Kuruc, Joann D; Falcinelli, Shane D; Warren, Joanna A; Reifeis, Sarah A; Kirchherr, Jennifer L; James, Katherine S; Dewey, Morgan G; Helms, Alyson; Allard, Brigitte; Stuelke, Erin; Gamble, Alicia; Plachco, Ana; Gorelick,Robert; Eron, Joseph J; Hudgens, Michael; Garrido, Carolina; Goonetilleke, Nilu; DeBenedette, Mark A; Tcherepanova, Irina Y; Nicolette, Charles A; Archin, Nancie M; Margolis, David M
  3. Scientific reports. 2020, Mar 20; 10(1): 5134.
  1. 10.   Robust and persistent reactivation of SIV and HIV by N-803 and depletion of CD8+ cells
  2. McBrien, Julia Bergild; Mavigner, Maud; Franchitti, Lavinia; Smith, S Abigail; White, Erick; Tharp, Gregory K; Walum, Hasse; Busman-Suhay, Kathleen; Aguilera-Sandoval, Christian R; Thayer, William O; Spagnuolo, Rae Ann; Kovarova, Martina; Wahl, Angela; Cervasi, Barbara; Margolis, David M; Vanderford, Thomas H; Carnathan, Diane G; Paiardini, Mirko; Lifson,Jeffrey; Lee, John H; Safrit, Jeffrey T; Bosinger, Steven E; Estes, Jacob D; Derdeyn, Cynthia A; Garcia, J Victor; Kulpa, Deanna A; Chahroudi, Ann; Silvestri, Guido
  3. Nature. 2020, Jan 22;
  1. 11.   Origin of rebound virus in chronically SIV-infected Rhesus monkeys following treatment discontinuation
  2. Liu, Po-Ting; Keele,Brandon; Abbink, Peter; Mercado, Noe B; Liu, Jinyan; Bondzie, Esther A; Chandrashekar, Abishek; Borducchi, Erica N; Hesselgesser, Joseph; Mish, Michael; Chin, Gregory; Bekerman, Elena; Geleziunas, Romas; Barouch, Dan H
  3. Nature communications. 2020, 10 27; 11(1): 5412.
  1. 12.   HIV Proviral Sequence Database (PSD): A New Public Database for Near Full-Length HIV Proviral Sequences and Their Meta-Analyses
  2. Shao,Wei; Shan,Jigui; Hu,Wei-Shau; Halvas, Elias Konstantine; Mellors, John W; Coffin, John M; Kearney,Mary
  3. AIDS research and human retroviruses. 2020, Jan 1; 36(1): 1-3.
  1. 13.   Principles Governing Establishment versus Collapse of HIV-1 Cellular Spread
  2. Hataye, Jason M; Casazza, Joseph P; Best, Katharine; Liang, C Jason; Immonen,Taina; Ambrozak, David R; Darko, Samuel; Henry, Amy R; Laboune, Farida; Maldarelli,Frank; Douek, Daniel C; Hengartner, Nicolas W; Yamamoto, Takuya; Keele,Brandon; Perelson, Alan S; Koup, Richard A
  3. Cell host & microbe. 2019, Dec 11; 26(6): 748-763.e20.
  1. 14.   HIV Infected T Cells Can Proliferate in vivo Without Inducing Expression of the Integrated Provirus
  2. Musick,Andrew; Spindler,Jon; Boritz, Eli; Pérez, Liliana; Crespo-Vélez, Daniel; Patro,Sean; Sobolewski, Michele D; Bale,Michael; Reid, Carolyn; Keele,Brandon; Capoferri, Adam; Shao,Wei; Wiegand,Ann; Simonetti, Francesco R; Mellors, John W; Hughes,Stephen; Coffin, John M; Maldarelli,Frank; Kearney,Mary
  3. Frontiers in microbiology. 2019, OCT 1; 10: 2204.
  1. 15.   HIV Rebound Is Predominantly Fueled by Genetically Identical Viral Expansions from Diverse Reservoirs
  2. De Scheerder, Marie-Angélique; Vrancken, Bram; Dellicour, Simon; Schlub, Timothy; Lee, Eunok; Shao,Wei; Rutsaert, Sofie; Verhofstede, Chris; Kerre, Tessa; Malfait, Thomas; Hemelsoet, Dimitri; Coppens, Marc; Dhondt, Annemieke; De Looze, Danny; Vermassen, Frank; Lemey, Philippe; Palmer, Sarah; Vandekerckhove, Linos
  3. Cell host & microbe. 2019, SEP 11; 26(3): 347-+.
  1. 16.   No evidence of ongoing HIV replication or compartmentalization in tissues during combination antiretroviral therapy: Implications for HIV eradication
  2. Bozzi, G; Simonetti, F R; Watters, S A; Anderson, E M; Gouzoulis, M; Kearney,Mary; Rote, P; Lange,Camille; Shao,Wei; Gorelick,Robert; Fullmer,Brandie; Kumar, S; Wank, S; Hewitt, S; Kleiner, D E; Hattori, J; Bale,Michael; Hill,Shawn; Bell,Jennifer; Rehm, C; Grossman,Zehava; Yarchoan, R; Uldrick, T; Maldarelli,Frank
  3. Science advances. 2019, Sep; 5(9): eaav2045.
  1. 17.   The Landscape of Persistent Viral Genomes in ART-Treated SIV, SHIV, and HIV-2 Infections
  2. Bender, Alexandra M; Simonetti, Francesco R; Kumar, Mithra R; Fray, Emily J; Bruner, Katherine M; Timmons, Andrew E; Tai, Katherine Y; Jenike, Katharine M; Antar, Annukka A R; Liu, Po-Ting; Ho, Ya-Chi; Raugi, Dana N; Seydi, Moussa; Gottlieb, Geoffrey S; Okoye, Afam A; Del Prete,Greg; Picker, Louis J; Mankowski, Joseph L; Lifson,Jeffrey; Siliciano, Janet D; Laird, Greg M; Barouch, Dan H; Clements, Janice E; Siliciano, Robert F
  3. Cell host & microbe. 2019, Jul 10; 26(1): 73-85.e4.
  1. 18.   Clonal expansion of SIV-infected cells in macaques on antiretroviral therapy is similar to that of HIV-infected cells in humans
  2. Ferris,Andrea; Wells, David W; Guo, Shuang; Del Prete,Greg; Swanstrom,Adrienne; Coffin, John M; Wu,Xiaolin; Lifson,Jeffrey; Hughes,Stephen
  3. PLoS pathogens. 2019, Jul; 15(7): e1007869.
  1. 19.   Phylogenetic inference for the study of within-host HIV-1 dynamics and persistence on antiretroviral therapy
  2. Capoferri, Adam A.; Bale,Michael; Simonetti, Francesco R.; Kearney,Mary
  3. The lancet. HIV. 2019, May; 6(5): E325-E333.
  1. 20.   Cytokine-Mediated Systemic Adverse Drug Reactions in a Drug-Drug Interaction Study of Dolutegravir with Once-Weekly Isoniazid and Rifapentine
  2. Brooks, Kristina M; George, Jomy M; Pau, Alice K; Rupert, Adam; Mehaffy, Carolina; De, Prithwiraj; Dobos, Karen M; Kellogg, Anela; McLaughlin, Mary; McManus, Maryellen; Alfaro, Raul M; Hadigan, Colleen; Kovacs, Joseph A; Kumar, Parag
  3. Clinical Infectious Diseases. 2018, Jul 15; 67(2): 193-201.
  1. 21.   CTLA-4(+)PD-1(-) Memory CD4(+) T Cells Critically Contribute to Viral Persistence in Antiretroviral Therapy-Suppressed, SIV-Infected Rhesus Macaques
  2. McGary, Colleen S; Deleage, Claire; Harper, Justin; Micci, Luca; Ribeiro, Susan P; Paganini, Sara; Kuri-Cervantes, Leticia; Benne, Clarisse; Ryan, Emily S; Balderas, Robert; Jean, Sherrie; Easley, Kirk; Marconi, Vincent; Silvestri, Guido; Estes, Jake; Sekaly, Rafick-Pierre; Paiardini, Mirko
  3. Immunity. 2017, Oct 17; 47(4): 776-788.e5.
  1. 22.   Impact of treatment with raltegravir during primary or chronic HIV infection on RNA decay characteristics and the HIV viral reservoir
  2. Koelsch, K. K.; Boesecke, C.; McBride, K.; Gelgor, L.; Fahey, P.; Natarajan, V.; Baker, D.; Bloch, M.; Murray, J. M.; Zaunders, J.; Emery, S.; Cooper, D. A.; Kelleher, A. D.; Team, P. S.
  3. Aids. 2011, Nov; 25(17): 2069-2078.
  1. 23.   Resolving the identity myth: Key markers of functional CD4(+)FoxP3(+) regulatory T cells
  2. Chen, X.; Oppenheim, J. J.
  3. International Immunopharmacology. 2011, Oct; 11(10): 1489-1496.
  1. 24.   Detection of antibodies to Kaposi's sarcoma-associated herpesvirus: A new approach using K8.1 ELISA and a newly developed recombinant LANA ELISA
  2. Mbisa, G. L.; Miley, W.; Gamache, C. J.; Gillette, W. K.; Esposito, D.; Hopkins, R.; Busch, M. P.; Schreiber, G. B.; Little, R. F.; Yarchoan, R.; Ortiz-Conde, B. A.; Labo, N.; Whitby, D.
  3. Journal of Immunological Methods. 2010, Apr; 356(1-2): 39-46.
  1. 25.   Short-Course Raltegravir Intensification Does Not Reduce Persistent Low-Level Viremia in Patients with HIV-1 Suppression during Receipt of Combination Antiretroviral Therapy
  2. McMahon, D.; Jones, J.; Wiegand, A.; Gange, S. J.; Kearney, M.; Palmer, S.; McNulty, S.; Metcalf, J. A.; Acosta, E.; Rehm, C.; Coffin, J. M.; Mellors, J. W.; Maldarelli, F.
  3. Clinical Infectious Diseases. 2010, Mar; 50(6): 912-919.
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