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  1. 1.   Transcriptionally-active "defective" HIV-1 proviruses and their association with immunological non-response to antiretroviral therapy
  2. Scrimieri, Francesca; Bastian, Estella; Smith, Mindy; Rehm, Catherine A; Morse, Caryn; Kuruppu, Janaki; McLaughlin, Mary; Chang,Weizhong; Sereti, Irini; Kovacs, Joseph A; Lane, H Clifford; Imamichi, Hiromi
  3. The Journal of Infectious Diseases. 2024, Jan 16;
  1. 2.   The largest HIV-1-infected T cell clones in children on long-term combination antiretroviral therapy contain solo LTRs
  2. Botha, Johannes C; Demirov,Dimiter; Gordijn, Carli; Katusiime, Mary Grace; Bale, Michael J; Wu,Xiaolin; Wells, Daria; Hughes,Stephen; Cotton, Mark F; Mellors, John W; Kearney, Mary F; van Zyl, Gert U
  3. mBio. 2023, Aug 02; e0111623.
  1. 3.   Immune correlates of HIV-1 reservoir cell decline in early-treated infants
  2. Hartana, Ciputra Adijaya; Garcia-Broncano, Pilar; Rassadkina, Yelizaveta; Lian, Xiaodong; Jiang, Chenyang; Einkauf, Kevin B; Maswabi, Kenneth; Ajibola, Gbolahan; Moyo, Sikhulile; Mohammed, Terence; Maphorisa, Comfort; Makhema, Joseph; Yuki,Yuko; Martin,Pat; Bennett, Kara; Jean-Philippe, Patrick; Viard,Mathias; Hughes, Michael D; Powis, Kathleen M; Carrington,Mary; Lockman, Shahin; Gao, Ce; Yu, Xu G; Kuritzkes, Daniel R; Shapiro, Roger; Lichterfeld, Mathias
  3. Cell Reports. 2022, Jul 19; 40(3): 111126.
  1. 4.   HIVIntact: a python-based tool for HIV-1 genome intactness inference
  2. Wright, Imogen A.; Bale, Michael J.; Shao,Wei; Hu,Wei-Shau; Coffin, John M.; Van Zyl, Gert U.; Kearney,Mary
  3. Retrovirology. 2021, Jun 27; 18(1):
  1. 5.   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. 6.   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. 7.   Characterizing the Latent HIV-1 Reservoir in Patients with Viremia Suppressed on cART: Progress, Challenges, and Opportunities
  2. Rausch,Jason; Le Grice,Stuart
  3. Current HIV research. 2020, Dec 30; 18(2): 99-113.
  1. 8.   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. 9.   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. 10.   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. 11.   Defective HIV-1 proviruses produce viral proteins
  2. Imamichi, Hiromi; Smith, Mindy; Adelsberger,Joe; Izumi, Taisuke; Scrimieri, Francesca; Sherman,Brad; Rehm, Catherine A; Imamichi,Tomozumi; Pau, Alice; Catalfamo, Marta; Fauci, Anthony S; Lane, H Clifford
  3. Proceedings of the National Academy of Sciences of the United States of America. 2020, Feb 18; 117(7): 3704-3710.
  1. 12.   Dynamic Shifts in the HIV Proviral Landscape During Long Term Combination Antiretroviral Therapy: Implications for Persistence and Control of HIV Infections
  2. Anderson, Elizabeth M; Simonetti, Francesco R; Gorelick,Robert; Hill,Shawn; Gouzoulis, Monica A; Bell,Jennifer; Rehm, Catherine; Pérez, Liliana; Boritz, Eli; Wu,Xiaolin; Wells,Daria; Hughes,Stephen; Rao, Venigalla; Coffin, John M; Kearney,Mary; Maldarelli,Frank
  3. Viruses. 2020, FEB; 12(2): pii: v12020136.
  1. 13.   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. 14.   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. 15.   Predicting the broadly neutralizing antibody susceptibility of the HIV reservoir
  2. Yu, Wen-Han; Su, David; Torabi, Julia; Fennessey,Christine; Shiakolas, Andrea; Lynch, Rebecca; Chun, Tae-Wook; Doria-Rose, Nicole; Alter, Galit; Seaman, Michael S; Keele,Brandon; Lauffenburger, Douglas A; Julg, Boris
  3. JCI insight. 2019, Sep 05; 4(17): pii: 130153.
  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.   Clonal Sequences Recovered from Plasma from Patients with Residual HIV-1 Viremia and on Intensified Antiretroviral Therapy Are Identical to Replicating Viral RNAs Recovered from Circulating Resting CD4(+) T Cells
  2. Anderson, J. A.; Archin, N. M.; Ince, W.; Parker, D.; Wiegand, A.; Coffin, J. M.; Kuruc, J.; Eron, J.; Swanstrom, R.; Margolis, D. M.
  3. Journal of Virology. 2011, May; 85(10): 5220-5223.
  1. 20.   Characterization of human immunodeficiency virus type 1 (HIV-1) containing mutations in the nucleocapsid protein at a putative HIV-1 protease cleavage site
  2. Thomas, J. A.; Shulenin, S.; Coren, L. V.; Bosche, W. J.; Gagliardi, T. D.; Gorelick, R. J.; Oroszlan, S.
  3. Virology. 2006, Oct; 354(2): 261-270.
  1. 21.   Human immunodeficiency virus type 1 nucleocapsid zinc-finger mutations cause defects in reverse transcription and integration
  2. Thomas, J. A.; Gagliardi, T. D.; Alvord, W. G.; Lubomirski, M.; Bosche, W. J.; Gorelick, R. J.
  3. Virology. 2006, Sep; 353(1): 41-51.
  1. 22.   Redefining the common insertion site
  2. Wu, X. L.; Luke, B. T.; Burgess, S. M.
  3. Virology. 2006, JAN 20; 344(2): 292-295.
  1. 23.   Mutations in the U5 sequences adjacent to the primer binding site do not affect tRNA cleavage by Rous sarcoma virus RNase H but do cause aberrant integrations in vivo
  2. Oh, J.; Chang, K. W.; Hughes, S. H.
  3. Journal of Virology. 2006, JAN; 80(1): 451-459.
  1. 24.   Simian immunodeficiency virus integration preference is similar to that of human immunodeficiency virus type 1
  2. Crise, B.; Li, Y.; Yuan, C. C.; Morcock, D. R.; Whitby, D.; Munroe, D. J.; Arthur, L. O.; Wu, X. L.
  3. Journal of Virology. 2005, OCT; 79(19): 12199-12204.
  1. 25.   Different preference of HTLV-I provirus integration
  2. Satou, Y. S.; Wu, X.; Doi, K.; Yasunaga, J.; Taniguchi, Y.; Matsuoka, M.
  3. Aids Research and Human Retroviruses. 2005, MAY; 21(5): 489, Abstract P91-489, Abstract P91.
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