Now showing items 1-20 of 77

    • Ability of HIV-1 Nef to downregulate CD4 and HLA class I differs among viral subtypes 

      Mann, Jaclyn K; Byakwaga, Helen; Kuang, Xiaomei T; Le, Anh Q; Brumme, Chanson J; Mwimanzi, Philip; Omarjee, Saleha; Martin, Eric; Lee, Guinevere Q; Baraki, Bemuluyigza; Danroth, Ryan; McCloskey, Rosemary; Muzoora, Conrad; Bangsberg, David R; Hunt, Peter W; Goulder, Philip JR; Walker, Bruce D; Harrigan, P Richard; Martin, Jeff N; Ndung’u, Thumbi; Brockman, Mark A; Brumme, Zabrina L (BioMed Central, 2013)
      Background: The highly genetically diverse HIV-1 group M subtypes may differ in their biological properties. Nef is an important mediator of viral pathogenicity; however, to date, a comprehensive inter-subtype comparison ...
    • Amino-Acid Co-Variation in HIV-1 Gag Subtype C: HLA-Mediated Selection Pressure and Compensatory Dynamics 

      Rolland, Morgane; Manocheewa, Siriphan; Lanxon-Cookson, Erinn; Deng, Wenjie; Rousseau, Christine M.; Raugi, Dana N.; Learn, Gerald H.; Maust, Brandon S.; Coovadia, Hoosen; Ndung'u, Thumbi; Heckerman, David E.; Mullins, James I.; Carlson, Jonathan Courtland; Swain, Jabaris; Goulder, Philip J.; Walker, Bruce David; Brander, Christian (Public Library of Science, 2010)
      Background: Despite high potential for HIV-1 genetic variation, the emergence of some mutations is constrained by fitness costs, and may be associated with compensatory amino acid (AA) co-variation. To characterize the ...
    • Antigen Load and Viral Sequence Diversification Determine the Functional Profile of HIV-1–Specific CD8+ T Cells 

      Brumme, Zabrina L; Anastario, Michael; Cohen, Kristin W; Jolin, Jonathan S; Brumme, Chanson J; Streeck, Hendrik; Meier, Angela; Rosenberg, Eric Scott; Alter, Galit; Allen, Todd; Walker, Bruce David; Altfeld, Marcus (Public Library of Science, 2008)
      Background: Virus-specific CD8+ T lymphocytes play a key role in the initial reduction of peak viremia during acute viral infections, but display signs of increasing dysfunction and exhaustion under conditions of chronic ...
    • Antigen-Specific Antibody Glycosylation Is Regulated via Vaccination 

      Mahan, Alison E.; Jennewein, Madeleine F.; Suscovich, Todd; Dionne, Kendall; Tedesco, Jacquelynne; Chung, Amy W.; Streeck, Hendrik; Pau, Maria; Schuitemaker, Hanneke; Francis, Don; Fast, Patricia; Laufer, Dagna; Walker, Bruce D.; Baden, Lindsey; Barouch, Dan H.; Alter, Galit (Public Library of Science, 2016)
      Antibody effector functions, such as antibody-dependent cellular cytotoxicity, complement deposition, and antibody-dependent phagocytosis, play a critical role in immunity against multiple pathogens, particularly in the ...
    • Association of HLA-DRB1-restricted CD4+ T cell responses with HIV immune control 

      Ranasinghe, Srinika; Cutler, Sam; Davis, Isaiah; Lu, Richard; Soghoian, Damien Z.; Qi, Ying; Sidney, John; Kranias, Gregory; Flanders, Michael; Lindqvist, Madelene; Kuhl, Bjorn; Alter, Galit; Deeks, Steven G.; Walker, Bruce D.; Gao, Xiaojiang; Sette, Alessandro; Carrington, Mary; Streeck, Hendrik (2013)
      The contribution of HLA class II-restricted CD4+ T cell responses to HIV immune control is poorly defined. Here, we delineated novel peptide-DRB1 restrictions in functional assays and analyzed the host genetic effects of ...
    • Association Study of Common Genetic Variants and HIV-1 Acquisition in 6,300 Infected Cases and 7,200 Controls 

      McLaren, Paul J.; Coulonges, Cédric; Ripke, Stephan; van den Berg, Leonard; Buchbinder, Susan; Carrington, Mary; Cossarizza, Andrea; Dalmau, Judith; Deeks, Steven G.; Delaneau, Olivier; De Luca, Andrea; Goedert, James J.; Haas, David; Herbeck, Joshua T.; Kathiresan, Sekar; Kirk, Gregory D.; Lambotte, Olivier; Luo, Ma; Mallal, Simon; van Manen, Daniëlle; Martinez-Picado, Javier; Meyer, Laurence; Miro, José M.; Mullins, James I.; Obel, Niels; O'Brien, Stephen J.; Pereyra, Florencia; Plummer, Francis A.; Poli, Guido; Qi, Ying; Rucart, Pierre; Sandhu, Manj S.; Shea, Patrick R.; Schuitemaker, Hanneke; Theodorou, Ioannis; Vannberg, Fredrik; Veldink, Jan; Walker, Bruce D.; Weintrob, Amy; Winkler, Cheryl A.; Wolinsky, Steven; Telenti, Amalio; Goldstein, David B.; de Bakker, Paul I. W.; Zagury, Jean-François; Fellay, Jacques (Public Library of Science, 2013)
      Multiple genome-wide association studies (GWAS) have been performed in HIV-1 infected individuals, identifying common genetic influences on viral control and disease course. Similarly, common genetic correlates of acquisition ...
    • Attenuation of Multiple Nef Functions in HIV-1 Elite Controllers 

      Mwimanzi, Philip; Markle, Tristan J; Martin, Eric; Ogata, Yoko; Kuang, Xiaomei T; Tokunaga, Michiyo; Mahiti, Macdonald; Pereyra, Florencia M.; Miura, Toshiyuki; Walker, Bruce David; Brumme, Zabrina L; Brockman, Mark A; Ueno, Takamasa (BioMed Central, 2013)
      Background: Impaired HIV-1 Gag, Pol, and Env function has been described in elite controllers (EC) who spontaneously suppress plasma viremia to < 50 RNA copies/mL; however, activity of the accessory protein Nef remains ...
    • Broad and Gag-Biased HIV-1 Epitope Repertoires are Associated with Lower Viral Loads 

      Rolland, Morgane; Heckerman, David; Deng, Wenjie; Rousseau, Christine M.; Coovadia, Hoosen; Bishop, Karen; Goulder, Philip J.; Walker, Bruce David; Brander, Christian; Mullins, James I. (Public Library of Science, 2008)
      Background: HLA class-I alleles differ in their ability to control HIV replication through cell-mediated immune responses. No consistent associations have been found between the breadth of Cytotoxic T Lymphocytes (CTL) ...
    • Broad Neutralization by a Combination of Antibodies Recognizing the CD4 Binding Site and a New Conformational Epitope on the HIV-1 Envelope Protein 

      Klein, Florian; Gaebler, Christian; Mouquet, Hugo; Sather, D. Noah; Lehmann, Clara; Scheid, Johannes F.; Kraft, Zane; Liu, Yan; Pietzsch, John; Hurley, Arlene; Poignard, Pascal; Feizi, Ten; Morris, Lynn; Walker, Bruce David; Fätkenheuer, Gerd; Seaman, Michael S.; Stamatatos, Leonidas; Nussenzweig, Michel C. (The Rockefeller University Press, 2012)
      Two to three years after infection, a fraction of HIV-1–infected individuals develop serologic activity that neutralizes most viral isolates. Broadly neutralizing antibodies that recognize the HIV-1 envelope protein have ...
    • CD8 T Cell Response and Evolutionary Pressure to HIV-1 Cryptic Epitopes Derived from Antisense Transcription 

      Bansal, Anju; Yan, Jiyu; Akinsiku, Olusimidele T.; Schaefer, Malinda; Sabbaj, Steffanie; Bet, Anne; Levy, David N.; Heath, Sonya; Tang, Jianming; Kaslow, Richard A.; Ndung’u, Thumbi; Heckerman, David; Hunter, Eric; Goepfert, Paul A.; Carlson, Jonathan Courtland; Walker, Bruce David; Goulder, Philip J. (The Rockefeller University Press, 2010)
      Retroviruses pack multiple genes into relatively small genomes by encoding several genes in the same genomic region with overlapping reading frames. Both sense and antisense HIV-1 transcripts contain open reading frames ...
    • CD8+ T lymphocyte responses target functionally important regions of Protease and Integrase in HIV-1 infected subjects 

      Rodriguez, William Richard; Addo, Marylyn Martina; Rathod, Almas; Fitzpatrick, Cecily A; Yu, Xu; Perkins, Beth; Rosenberg, Eric Scott; Altfeld, Marcus; Walker, Bruce David (BioMed Central, 2004)
      Background: CD8+ T cell responses are known to be important to the control of HIV-1 infection. While responses to reverse transcriptase and most structural and accessory proteins have been extensively studied, CD8 T cell ...
    • Characteristics and Outcomes of Initial Virologic Suppressors during Analytic Treatment Interruption in a Therapeutic HIV-1 \(gag\) Vaccine Trial 

      Brumme, Chanson J.; Lederman, Michael M.; Brumme, Zabrina L.; Wang, Hongying; Carrington, Mary; Medvik, Kathleen; Schooley, Robert T.; Li, Jonathan Zheng; Spritzle, John; Walker, Bruce David; Kuritzkes, Daniel Robert (Public Library of Science, 2012)
      Background: In the placebo-controlled trial ACTG A5197, a trend favoring viral suppression was seen in the HIV-1-infected subjects who received a recombinant Ad5 HIV-1 \(gag\) vaccine. Objective: To identify individuals ...
    • Co-Operative Additive Effects between HLA Alleles in Control of HIV-1 

      Matthews, Philippa C.; Listgarten, Jennifer; Carlson, Jonathan M.; Payne, Rebecca; Huang, Kuan-Hsiang Gary; Frater, John; Goedhals, Dominique; Steyn, Dewald; van Vuuren, Cloete; Paioni, Paolo; Jooste, Pieter; Ogwu, Anthony; Shapiro, Roger L.; Mncube, Zenele; Ndung'u, Thumbi; Walker, Bruce David; Heckerman, David; Goulder, Philip J. R. (Public Library of Science, 2012)
      Background: HLA class I genotype is a major determinant of the outcome of HIV infection, and the impact of certain alleles on HIV disease outcome is well studied. Recent studies have demonstrated that certain HLA class I ...
    • The complex and specific pMHC interactions with diverse HIV-1 TCR clonotypes reveal a structural basis for alterations in CTL function 

      Xia, Zhen; Chen, Huabiao; Kang, Seung-gu; Huynh, Tien; Fang, Justin W.; Lamothe, Pedro A.; Walker, Bruce D.; Zhou, Ruhong (Nature Publishing Group, 2014)
      Immune control of viral infections is modulated by diverse T cell receptor (TCR) clonotypes engaging peptide-MHC class I complexes on infected cells, but the relationship between TCR structure and antiviral function is ...
    • CTL Responses of High Functional Avidity and Broad Variant Cross-Reactivity Are Associated with HIV Control 

      Mothe, Beatriz; Llano, Anuska; Ibarrondo, Javier; Zamarreño, Jennifer; Schiaulini, Mattia; Miranda, Cristina; Ruiz-Riol, Marta; Berger, Christoph T.; Herrero, M. José; Palou, Eduard; Plana, Montse; Rolland, Morgane; Heckerman, David; Weiner, David; Paredes, Roger; Clotet, Bonaventura; Felber, Barbara K.; Pavlakis, George N.; Mullins, James I.; Brander, Christian; Khatri, Ashok; Pereyra, Florencia M.; Walker, Bruce David (Public Library of Science, 2012)
      Cytotoxic T lymphocyte (CTL) responses targeting specific HIV proteins, in particular Gag, have been associated with relative control of viral replication \(in\) \(vivo\). However, Gag-specific CTL can also be detected in ...
    • Differences in the Selection Bottleneck between Modes of Sexual Transmission Influence the Genetic Composition of the HIV-1 Founder Virus 

      Tully, Damien C.; Ogilvie, Colin B.; Batorsky, Rebecca E.; Bean, David J.; Power, Karen A.; Ghebremichael, Musie; Bedard, Hunter E.; Gladden, Adrianne D.; Seese, Aaron M.; Amero, Molly A.; Lane, Kimberly; McGrath, Graham; Bazner, Suzane B.; Tinsley, Jake; Lennon, Niall J.; Henn, Matthew R.; Brumme, Zabrina L.; Norris, Philip J.; Rosenberg, Eric S.; Mayer, Kenneth H.; Jessen, Heiko; Kosakovsky Pond, Sergei L.; Walker, Bruce D.; Altfeld, Marcus; Carlson, Jonathan M.; Allen, Todd M. (Public Library of Science, 2016)
      Due to the stringent population bottleneck that occurs during sexual HIV-1 transmission, systemic infection is typically established by a limited number of founder viruses. Elucidation of the precise forces influencing the ...
    • Discordant Impact of HLA on Viral Replicative Capacity and Disease Progression in Pediatric and Adult HIV Infection 

      Adland, Emily; Paioni, Paolo; Thobakgale, Christina; Laker, Leana; Mori, Luisa; Muenchhoff, Maximilian; Csala, Anna; Clapson, Margaret; Flynn, Jacquie; Novelli, Vas; Hurst, Jacob; Naidoo, Vanessa; Shapiro, Roger; Huang, Kuan-Hsiang Gary; Frater, John; Prendergast, Andrew; Prado, Julia G.; Ndung’u, Thumbi; Walker, Bruce D.; Carrington, Mary; Jooste, Pieter; Goulder, Philip J. R. (Public Library of Science, 2015)
      HLA class I polymorphism has a major influence on adult HIV disease progression. An important mechanism mediating this effect is the impact on viral replicative capacity (VRC) of the escape mutations selected in response ...
    • Elite control of HIV infection: implications for vaccines 

      Miura, Toshiyuki; Rathod, Almas; Baker, Brett; Trocha, Alicja; Ueda, Peggy; Stone, David; Wrin, Terri; Buchbinder, Susan; Petropoulos, Christos J; Pereyra, Florencia M.; Addo, Marylyn Martina; Kaufmann, Daniel; Rosenberg, Rachel; Cohen, Daniel Aaron; Liu, Yang; Rosenberg, Eric Scott; Walker, Bruce David (BioMed Central, 2006)
    • Enhanced binding of antibodies generated during chronic HIV infection to mucus component MUC16 

      Gunn, Bronwyn; Schneider, Jeffrey; Shansab, Maryam; Bastian, Arangassery Rosemary; Fahrbach, Kelly; Smith, Archer; Mahan, Alison; Karim, Marcus; Licht, Anna; Zvonar, Ivan; Tedesco, Jacquelynn; Anderson, Meegan; Chapel, Anais; Suscovich, Todd; Malaspina, David; Streeck, Hendrik; Walker, Bruce D.; Kim, Arthur; Lauer, Georg; Altfeld, Marcus; Pillai, Shiv; Szleifer, Igal; Kelleher, Neil L.; Kiser, Patrick F.; Hope, Thomas J.; Alter, Galit (2016)
      Transmission of HIV across mucosal barriers accounts for the majority of HIV infections worldwide. Thus, efforts aimed at enhancing protective immunity at these sites are a top priority, including increasing virus-specific ...
    • Evidence of Differential HLA Class I-Mediated Viral Evolution in Functional and Accessory/Regulatory Genes of HIV-1 

      Brumme, Zabrina L; Brumme, Chanson J; Heckerman, David; Korber, Bette T; Daniels, Marcus; Kadie, Carl; Bhattacharya, Tanmoy; Chui, Celia; Szinger, James; Mo, Theresa; Hogg, Robert S; Montaner, Julio S. G; Frahm, Nicole; Harrigan, P. Richard; Carlson, Jonathan Courtland; Brander, Christian; Walker, Bruce David (Public Library of Science, 2007)
      Despite the formidable mutational capacity and sequence diversity of HIV-1, evidence suggests that viral evolution in response to specific selective pressures follows generally predictable mutational pathways. Population-based ...