30 results on '"Sarah W. Read"'
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2. Preparing better: Accelerating COVID-19 Therapeutic Interventions and Vaccines (ACTIV) therapeutics trials lessons learned: A call to the future
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Stacey J. Adam, Timothy G. Buchman, Judith S. Currier, Ruxandra Draghia-Akli, Josh P. Fessel, Elizabeth S. Higgs, Eric A. Hughes, Lisa LaVange, Joseph P. Menetski, Sarah W. Read, Yves Rosenberg, Randall Tressler, and ACTIV Therapeutics-Clinical Working Group
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Covid-19 ,trials ,therapeutics ,master protocol ,lessons learned ,Medicine - Abstract
The Accelerating COVID-19 Therapeutic Interventions and Vaccines Therapeutic-Clinical Working Group members gathered critical recommendations in follow-up to lessons learned manuscripts released earlier in the COVID-19 pandemic. Lessons around agent prioritization, preclinical therapeutics testing, master protocol design and implementation, drug manufacturing and supply, data sharing, and public–private partnership value are shared to inform responses to future pandemics.
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- 2024
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3. Overview of ACTIV trial-specific lessons learned
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Ruxandra Draghia-Akli, Sarah W. Read, and Eric A. Hughes
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ACTIV ,COVID-19 ,public-private partnership ,master protocols ,drug testing ,Medicine - Abstract
Accelerating COVID-19 Therapeutic Interventions and Vaccines (ACTIV) was an extraordinary example of a public-private partnership (PPP) that brought together over thirty organizations and hundreds of individuals to address one of the most pressing global health needs in recent decades. In particular, ACTIV provided a key avenue for testing numerous therapeutics for their potential benefit in treating the SARS-CoV-2 virus or the resulting symptoms of acute COVID-19 infection. Given the speed and scale at which ACTIV designed and implemented master protocols across global networks that it was simultaneously working to create, the PPP can provide valuable lessons for best practices and avoiding pitfalls the next time the world is faced with a global pandemic of a novel pathogen. This report provides a general overview of the ACTIV partnership to set the stage and context for the subsequent articles in this issue that will relay these lessons learned.
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- 2024
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4. The future is now: Using the lessons learned from the ACTIV COVID-19 therapeutics trials to create an inclusive and efficient clinical trials enterprise
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Stacey J. Adam, Sarah E. Dunsmore, Lisa H. Merck, Sarah W. Read, and Yves Rosenberg
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Medicine - Published
- 2024
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5. Leveraging lessons learned from the COVID-19 pandemic for HIV
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Thomas Calder, Tina Tong, Dale J. Hu, Jerome H. Kim, Karen L. Kotloff, Richard A. Koup, Mary A. Marovich, M. Juliana McElrath, Sarah W. Read, Merlin L. Robb, Philip O. Renzullo, and M. Patricia D’Souza
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Medicine - Abstract
Calder, Tong et al. discuss how the rapid development of COVID-19 vaccines benefited from HIV/AIDS research. They highlight lessons learned from the COVID-19 vaccine development experience that could accelerate and re-energize the development of a safe and efficacious HIV vaccine.
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- 2022
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6. Forty years of investment in HIV research: progress towards ending the HIV pandemic and preparation for future pandemics
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Sarah W. Read, Peter Kim, Mary Marovich, Carl W. Dieffenbach, and Anthony S. Fauci
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Immunologic diseases. Allergy ,RC581-607 - Published
- 2022
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7. Accelerating COVID-19 Therapeutic Interventions and Vaccines (ACTIV): Designing Master Protocols for Evaluation of Candidate COVID-19 Therapeutics
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Lisa M. LaVange, Judith S. Currier, Lora A. Reineck, Eric A Hughes, Sarah W. Read, Elizabeth S. Higgs, and Stacey J Adam
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2019-20 coronavirus outbreak ,COVID-19 Vaccines ,Coronavirus disease 2019 (COVID-19) ,Process (engineering) ,Psychological intervention ,Public-Private Sector Partnership ,Antiviral Agents ,Public-Private Sector Partnerships ,Time frame ,Clinical Protocols ,Drug Development ,Internal Medicine ,Humans ,Medicine ,Pandemics ,Protocol (science) ,SARS-CoV-2 ,Critically ill ,business.industry ,COVID-19 ,General Medicine ,United States ,COVID-19 Drug Treatment ,National Institutes of Health (U.S.) ,Risk analysis (engineering) ,Special Articles ,business - Abstract
Despite the development of highly effective SARS-CoV-2 vaccines, there remains a great need for effective treatment of COVID-19. Through a public–private partnership in the United States, a system has been created to efficiently test a variety of therapeutic agents across the full spectrum of this disease. In addition to lessening the morbidity and mortality of COVID-19, this approach may also be useful in combating future epidemics., Working in an unprecedented time frame, the Accelerating COVID-19 Therapeutic Interventions and Vaccines (ACTIV) public–private partnership developed and launched 9 master protocols between 14 April 2020 and 31 May 2021 to allow for the coordinated and efficient evaluation of multiple investigational therapeutic agents for COVID-19. The ACTIV master protocols were designed with a portfolio approach to serve the following patient populations with COVID-19: mild to moderately ill outpatients, moderately ill inpatients, and critically ill inpatients. To facilitate the execution of these studies and minimize start-up time, ACTIV selected several existing networks to launch the master protocols. The master protocols were also designed to test several agent classes prioritized by ACTIV that covered the spectrum of the disease pathophysiology. Each protocol, either adaptive or pragmatic, was designed to efficiently select those treatments that provide benefit to patients while rapidly eliminating those that were either ineffective or unsafe. The ACTIV Therapeutics-Clinical Working Group members describe the process by which these master protocols were designed, developed, and launched. Lessons learned that may be useful in meeting the challenges of a future pandemic are also described.
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- 2021
8. Accelerating Coronavirus Disease 2019 Therapeutic Interventions and Vaccines—Selecting Compounds for Clinical Evaluation in Coronavirus Disease 2019 Clinical Trials
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Joseph P. Menetski, Eric A Hughes, Joshua P. Fessel, Stacey J Adam, Timothy G. Buchman, Ruxandra Draghia-Akli, Sarah W. Read, Elizabeth S. Higgs, and Neil R. Aggarwal
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COVID-19 Vaccines ,Coronavirus disease 2019 (COVID-19) ,Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) ,clinical evaluation ,Psychological intervention ,Review Article ,Critical Care and Intensive Care Medicine ,Bioinformatics ,Antiviral Agents ,Public-Private Sector Partnerships ,Antibodies ,coronavirus disease 2019 ,Drug Development ,Pandemic ,Drug Discovery ,Medicine ,Humans ,Pandemics ,clinical trials ,business.industry ,SARS-CoV-2 ,COVID-19 ,United States ,COVID-19 Drug Treatment ,Clinical trial ,Immune Modulators ,Drug development ,National Institutes of Health (U.S.) ,treatments ,ComputingMethodologies_DOCUMENTANDTEXTPROCESSING ,compounds ,business ,Clinical evaluation - Abstract
Supplemental Digital Content is available in the text., Given the urgent need for coronavirus disease 2019 therapeutics, early in the pandemic the Accelerating Coronavirus Disease 2019 Therapeutic Interventions and Vaccines (ACTIV) public-private partnership rapidly designed a unique therapeutic agent intake and assessment process for candidate treatments of coronavirus disease 2019. These treatments included antivirals, immune modulators, severe acute respiratory syndrome coronavirus 2 neutralizing antibodies, and organ-supportive treatments at both the preclinical and clinical stages of development. The ACTIV Therapeutics-Clinical Working Group Agent Prioritization subgroup established a uniform data collection process required to perform an assessment of any agent type using review criteria that were identified and differentially weighted for each agent class. The ACTIV Therapeutics-Clinical Working Group evaluated over 750 therapeutic agents with potential application for coronavirus disease 2019 and prioritized promising candidates for testing within the master protocols conducted by ACTIV. In addition, promising agents among preclinical candidates were selected by ACTIV to be matched with laboratories that could assist in executing rigorous preclinical studies. Between April 14, 2020, and May 31, 2021, the Agent Prioritization subgroup advanced 20 agents into the Accelerating Coronavirus Disease 2019 Therapeutic Interventions and Vaccines master protocols and matched 25 agents with laboratories to assist with preclinical testing.
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- 2021
9. Developing tuberculosis vaccines for people with HIV: consensus statements from an international expert panel
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Maurine D Miner, Mark Hatherill, Vidya Mave, Glenda E Gray, Sharon Nachman, Sarah W Read, Richard G White, Anneke Hesseling, Frank Cobelens, Sheral Patel, Mike Frick, Theodore Bailey, Robert Seder, Joanne Flynn, Jyothi Rengarajan, Deepak Kaushal, Willem Hanekom, Alexander C Schmidt, Thomas J Scriba, Elisa Nemes, Erica Andersen-Nissen, Alan Landay, Susan E Dorman, Grace Aldrovandi, Lisa M Cranmer, Cheryl L Day, Alberto L Garcia-Basteiro, Andrew Fiore-Gartland, Robin Mogg, James G Kublin, Amita Gupta, and Gavin Churchyard
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Infectious Diseases ,Epidemiology ,Virology ,Immunology ,Humans ,Tuberculosis ,HIV Infections ,Mycobacterium tuberculosis ,Tuberculosis Vaccines - Abstract
New tuberculosis vaccine candidates that are in the development pipeline need to be studied in people with HIV, who are at high risk of acquiring Mycobacterium tuberculosis infection and tuberculosis disease and tend to develop less robust vaccine-induced immune responses. To address the gaps in developing tuberculosis vaccines for people with HIV, a series of symposia was held that posed six framing questions to a panel of international experts: What is the use case or rationale for developing tuberculosis vaccines? What is the landscape of tuberculosis vaccines? Which vaccine candidates should be prioritised? What are the tuberculosis vaccine trial design considerations? What is the role of immunological correlates of protection? What are the gaps in preclinical models for studying tuberculosis vaccines? The international expert panel formulated consensus statements to each of the framing questions, with the intention of informing tuberculosis vaccine development and the prioritisation of clinical trials for inclusion of people with HIV.
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- 2022
10. 2019: A Banner Year for Tuberculosis Research
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Robert W Eisinger, Alan C. Embry, Anthony S. Fauci, and Sarah W. Read
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Civil society ,Tuberculosis ,Control (management) ,Antitubercular Agents ,Psychological intervention ,030204 cardiovascular system & hematology ,03 medical and health sciences ,0302 clinical medicine ,Momentum (finance) ,Political science ,medicine ,Animals ,Humans ,Immunology and Allergy ,030212 general & internal medicine ,Tuberculosis Vaccines ,health care economics and organizations ,Government ,business.industry ,Scientific progress ,Mycobacterium tuberculosis ,Public relations ,medicine.disease ,Infectious Diseases ,Perspective ,Banner ,business - Abstract
This article outlines the significant scientific progress reported in 2019 that has led to the development of new drugs and therapeutic regimens, vaccine candidates, and diagnostics for the prevention and treatment of tuberculosis. In 2020, it will be important to build on this momentum and continue to advance basic and clinical research to develop improved tools and interventions, simultaneously optimizing their implementation in national control programs. To successfully achieve the goal to end tuberculosis within a generation, a concerted, collective, and collaborative effort is required, involving government, academia, industry and civil society at all levels.
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- 2020
11. The effect of leflunomide on cycling and activation of T-cells in HIV-1-infected participants.
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Sarah W Read, Mary DeGrezia, Emily J Ciccone, Rebecca DerSimonian, Jeanette Higgins, Joseph W Adelsberger, Judith M Starling, Catherine Rehm, and Irini Sereti
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Medicine ,Science - Abstract
The pathogenesis of immunodeficiency due to human immunodeficiency virus (HIV)-1 is incompletely understood, but immune activation is believed to play a central role. Immunomodulatory agents that decrease immune activation may be useful in the treatment of HIV-1 infection.A randomized, double blind, placebo-controlled pilot study of leflunomide for 28 days was performed in participants with HIV-1 infection who were not receiving antiretroviral therapy. Participants randomized to leflunomide were subsequently treated with cholestyramine until leflunomide levels were below detection limit.Treatment with leflunomide was well tolerated with mostly low-grade adverse events. Leflunomide administration reduced cycling of CD4 T cells (by ex vivo bromodeoxyuridine uptake and Ki67 expression) and decreased expression of activation markers (HLA-DR/CD38 co-expression) on CD8 T cells in peripheral blood. In addition, decreased expression of HIV-1 co-receptors was observed in both CD4 and CD8 T cells in the leflunomide group. There were no significant changes in naïve and memory T cell subsets, apoptosis of T cells or markers of microbial translocation.Leflunomide was effective in reducing immune activation in the setting of chronic HIV-1 infection suggesting that targeting immune activation with immunomodulatory agents may be a feasible strategy.ClinicalTrials.gov NCT00101374.
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- 2010
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12. Therapy for Early COVID-19
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Peter S. Kim, Anthony S. Fauci, and Sarah W. Read
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2019-20 coronavirus outbreak ,Coronavirus disease 2019 (COVID-19) ,Adaptive Clinical Trials as Topic ,business.industry ,Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) ,MEDLINE ,COVID-19 ,General Medicine ,Antiviral Agents ,Virology ,Drug Discovery ,Pandemic ,Humans ,Medicine ,business ,Pandemics ,Randomized Controlled Trials as Topic - Published
- 2020
13. The Effect of Chloroquine on Immune Activation and Interferon Signatures Associated with HIV-1
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David B. Clifford, Charles Flexner, Minhee Kang, Daniel C. Douek, Lynette Purdue, Alan L. Landay, Sarah W. Read, Jeffrey M. Jacobson, Princy Kumar, Brian Clagett, Laurie Myers, Michael M. Lederman, Pablo F. Belaunzarán-Zamudio, Steven E. Bosinger, Cara C. Wilson, Pablo Tebas, Roy M. Matining, Guido Silvestri, Linda Boone, and Jill Plants
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Adult ,Male ,0301 basic medicine ,Adolescent ,Immunology ,HIV Infections ,CD8-Positive T-Lymphocytes ,Pharmacology ,CD38 ,Placebo ,law.invention ,Placebos ,Young Adult ,03 medical and health sciences ,Double-Blind Method ,Randomized controlled trial ,Interferon ,Immunity ,law ,Chloroquine ,Virology ,Humans ,Immunologic Factors ,Medicine ,Clinical Trials/Clinical Studies ,Aged ,Immunity, Cellular ,Cross-Over Studies ,business.industry ,Gene Expression Profiling ,Middle Aged ,Immunity, Humoral ,Clinical trial ,030104 developmental biology ,Infectious Diseases ,Cohort ,Female ,business ,medicine.drug - Abstract
Immune activation associated with HIV-1 infection contributes to morbidity and mortality. We studied whether chloroquine, through Toll-like receptor (TLR) antagonist properties, could reduce immune activation thought to be driven by TLR ligands, such as gut-derived bacterial elements and HIV-1 RNAs. AIDS Clinical Trials Group A5258 was a randomized, double-blind, placebo-controlled study in 33 HIV-1-infected participants off antiretroviral therapy (ART) and 37 participants on ART. Study participants in each cohort were randomized 1:1 to receive chloroquine 250 mg orally for the first 12 weeks then cross over to placebo for 12 weeks or placebo first and then chloroquine. Combining the periods of chloroquine use in both arms of the on-ART cohort yielded a modest reduction in the proportions of CD8 T cells co-expressing CD38 and DR (median decrease = 3.0%, p = .003). The effect on immune activation in the off-ART cohort was likely confounded by increased plasma HIV-1 RNA during chloroquine administration (median 0.29 log10 increase, p
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- 2016
14. Safety and Immunogenicity of Zoster Vaccine Live in Human Immunodeficiency Virus–Infected Adults With CD4(+) Cell Counts >200 Cells/mL Virologically Suppressed on Antiretroviral Therapy
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Bernard J.C. Macatangay, Robbie B. Mailliard, Paula W. Annunziato, Cheryl Jennings, Marshall J. Glesby, Dawn R Bozzolo, Sarah W. Read, Charles R. Rinaldo, Janet Andersen, Lynette Purdue, Jason C. Martin, Amy Falk Russell, Zoran Popmihajlov, Constance A. Benson, Michael C. Keefer, Pablo Tebas, and Jeffrey L. Lennox
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0301 basic medicine ,Microbiology (medical) ,Adult ,Male ,medicine.medical_specialty ,Enzyme-Linked Immunospot Assay ,Herpesvirus 3, Human ,Sustained Virologic Response ,030106 microbiology ,HIV Infections ,medicine.disease_cause ,Placebo ,Antibodies, Viral ,Gastroenterology ,03 medical and health sciences ,0302 clinical medicine ,Immunogenicity, Vaccine ,Double-Blind Method ,Internal medicine ,Antiretroviral Therapy, Highly Active ,medicine ,Clinical endpoint ,Herpes Zoster Vaccine ,Humans ,030212 general & internal medicine ,Adverse effect ,Articles and Commentaries ,business.industry ,Surrogate endpoint ,Immunogenicity ,Incidence (epidemiology) ,Varicella zoster virus ,Middle Aged ,CD4 Lymphocyte Count ,Infectious Diseases ,Zoster vaccine ,Female ,business ,medicine.drug - Abstract
BACKGROUND: Herpes zoster (HZ) risk is increased in human immunodeficiency virus (HIV)–infected persons. Live attenuated zoster vaccine (ZV) reduces HZ incidence and severity in adults; safety and immunogenicity data in HIV-infected adults are limited. METHODS: We conducted a randomized, double-blind, placebo-controlled trial in HIV-infected adults virally suppressed on antiretroviral therapy (ART). Participants, stratified by CD4(+) count (200–349 or ≥350 cells/µL), were randomized 3:1 to receive ZV or placebo on day 0 and week 6. The primary endpoint was serious adverse event or grade 3/4 signs/symptoms within 6 weeks after each dose. Immunogenicity (varicella zoster virus [VZV]–specific glycoprotein enzyme-linked immunosorbent assay and interferon-γ enzyme-linked immunospot assay responses) was assessed at 6 and 12 weeks postvaccination. RESULTS: Of 395 participants (296 ZV vs 99 placebo), 84% were male, 47% white, 29% black, and 22% Hispanic; median age was 49 years. Safety endpoints occurred in 15 ZV and 2 placebo recipients (5.1% [95% confidence interval {CI}, 2.9%–8.2%] vs 2.1% [95% CI, .3%–7.3%]; P = .26). Injection site reactions occurred in 42% of ZV (95% CI, 36.3%–47.9%) vs 12.4% of placebo recipients (95% CI, 6.6%–20.6%) (P < .001). Week 12 median natural log VZV antibody titer was higher for ZV (6.30 [Q1, Q3, 5.64, 6.96]) vs placebo (5.48 [Q1, Q3, 4.63, 6.44]; P < .001) overall and in the high CD4(+) stratum (P = .003). VZV antibody titers were similar after 1 or 2 ZV doses. Polymerase chain reaction–confirmed HZ occurred in 2 participants (1 ZV; 1 placebo); none was vaccine strain related. CONCLUSIONS: Two doses of ZV in HIV-infected adults suppressed on ART with CD4(+) counts ≥200 cells/µL were safe and immunogenic. CLINICAL TRIALS REGISTRATION: NCT00851786.
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- 2018
15. Predictors of Residual Viraemia in Patients on Long-Term Suppressive Antiretroviral Therapy
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Sarah W. Read, Ellen S. Chan, David M. Margolis, Joseph J. Eron, John W. Mellors, Lu Zheng, Mary F. Kearney, Ronald J. Bosch, and Rajesh T. Gandhi
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Adult ,Male ,medicine.medical_specialty ,Anti-HIV Agents ,Population ,HIV Infections ,Viremia ,Polymerase Chain Reaction ,Gastroenterology ,Article ,Drug Administration Schedule ,Predictive Value of Tests ,Antiretroviral Therapy, Highly Active ,Internal medicine ,Humans ,Medicine ,Pharmacology (medical) ,In patient ,education ,Aged ,Pharmacology ,education.field_of_study ,business.industry ,Age Factors ,virus diseases ,Middle Aged ,Viral Load ,Raltegravir ,medicine.disease ,Antiretroviral therapy ,CD4 Lymphocyte Count ,Clinical trial ,Infectious Diseases ,Predictive value of tests ,Immunology ,HIV-1 ,RNA, Viral ,Female ,business ,Viral load ,medicine.drug - Abstract
Background HIV-1-infected individuals with plasma RNAMethods We evaluated factors associated with residual viraemia in patients on suppressive ART who underwent screening for a raltegravir intensification trial (ACTG A5244). The screened population was HIV-1-infected adults receiving ART for ≥12 months with pre-ART HIV-1 RNA>100,000 copies/ml and on-therapy RNA levels below detection limits of commercial assays for ≥6 months. Results Of 103 patients eligible for analysis, the median age was 46 years and the median duration of viral suppression was 4.8 years. 62% had detectable viraemia (>0.2 copies/ml) by SCA (median 0.2 copies/ml, IQR 2 years (median 2.3 versus 0.2 copies/ml; P=0.016). Conclusions Among HIV-1-infected patients with pre-ART HIV-1 RNA>100,000 copies/ml, residual viraemia was detectable in the majority (62%) despite many years of suppressive ART. Higher level viraemia was associated with older age and
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- 2013
16. Immune Activation in the Pathogenesis of Treated Chronic HIV Disease: A Workshop Summary
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Alan C. Embry, Runa Musib, Susan Plaeger, Steven G. Deeks, Brenda S. Collins, and Sarah W. Read
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Primates ,medicine.medical_specialty ,Anti-HIV Agents ,Immunology ,Simian Acquired Immunodeficiency Syndrome ,Inflammation ,Pathogenesis ,Disease ,Lymphocyte Activation ,Intestinal mucosa ,Risk Factors ,Virology ,Intervention (counseling) ,medicine ,Animals ,Humans ,Intestinal Mucosa ,Intensive care medicine ,Acquired Immunodeficiency Syndrome ,Mechanism (biology) ,business.industry ,Viral Load ,Infectious Diseases ,Cardiovascular Diseases ,Kidney Diseases ,medicine.symptom ,business ,Viral load ,Immune activation - Abstract
With the advent of highly effective antiretroviral therapy (ART), infection with human immunodeficiency virus (HIV) has become a chronic disease rather than a death sentence. Nevertheless, effectively treated individuals have a higher than normal risk for developing noninfectious comorbidities, including cardiovascular and renal disease. Although traditional risk factors of aging as well as treatment toxicity contribute to this risk, many investigators consider chronic HIV-associated inflammation a significant factor in such end-organ disease. Despite effective viral suppression, chronic inflammation persists at levels higher than in uninfected people, yet the stimuli for the inflammation and the mechanism by which inflammation persists and promotes disease pathology remain incompletely understood. This critical gap in scientific understanding complicates and hampers effective decision making about appropriate medical intervention. To better understand the mechanism(s) of chronic immune activation in treated HIV disease, three questions need answers: (1) what is the cause of persistent immune activation during treated HIV infection, (2) what are the best surrogate markers of chronic immune activation in this setting, and (3) what therapeutic intervention(s) could prevent or reverse this process? The NIH sponsored and convened a meeting to discuss the state of knowledge concerning these questions and the best course for developing effective therapeutic strategies. This report summarizes the findings of that NIH meeting.
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- 2012
17. Decreases in IL-7 levels during antiretroviral treatment of HIV infection suggest a primary mechanism of receptor-mediated clearance
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Brian O. Porter, Sharat Srinivasula, JoAnn M. Mican, Zonghui Hu, Michele Di Mascio, Insook Kim, Irini Sereti, Chang Paik, Paula DeGrange, Jessica N. Hodge, and Sarah W. Read
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Adult ,CD4-Positive T-Lymphocytes ,Male ,Immunology ,HIV Infections ,CD8-Positive T-Lymphocytes ,Biology ,Biochemistry ,Immunophenotyping ,Flow cytometry ,Immune system ,T-Lymphocyte Subsets ,Antiretroviral Therapy, Highly Active ,medicine ,Humans ,Longitudinal Studies ,Receptor ,Interleukin-7 receptor ,Immunobiology ,Receptors, Interleukin-7 ,medicine.diagnostic_test ,Interleukin-7 ,virus diseases ,Cell Biology ,Hematology ,Middle Aged ,Models, Theoretical ,Viral Load ,Flow Cytometry ,Anti-Retroviral Agents ,Case-Control Studies ,HIV-1 ,Female ,Viral load ,Homeostasis ,CD8 - Abstract
IL-7 is essential for T-cell homeostasis. Elevated serum IL-7 levels in lymphopenic states, including HIV infection, are thought to be due to increased production by homeostatic feedback, decreased receptor-mediated clearance, or both. The goal of this study was to understand how immune reconstitution through antiretroviral therapy (ART) in HIV+ patients affects IL-7 serum levels, expression of the IL-7 receptor (CD127), and T-cell cycling. Immunophenotypic analysis of T cells from 29 HIV− controls and 43 untreated HIV+ patients (30 of whom were followed longitudinally for ≤ 24 months on ART) was performed. Restoration of both CD4+ and CD8+ T cells was driven by increases in CD127+ naive and central memory T cells. CD4+ T-cell subsets were not fully restored after 2 years of ART, whereas serum IL-7 levels normalized by 1 year of ART. Mathematical modeling indicated that changes in serum IL-7 levels could be accounted for by changes in the receptor concentration. These data suggest that T-cell restoration after ART in HIV infection is driven predominantly by CD127+ cells and that decreases of serum IL-7 can be largely explained by improved CD127-mediated clearance.
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- 2011
18. CD4 + T Cells, Including Th17 and Cycling Subsets, Are Intact in the Gut Mucosa of HIV-1-Infected Long-Term Nonprogressors
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Jessica N. Hodge, Leonid Margolis, Sarah W. Read, Stephen A. Migueles, Philip I. Lee, Stephen B. Kovacs, Jamieson H. Greenwald, Irini Sereti, Emily J. Ciccone, Cheryl Chairez, William L. Thompson, Michael A. Yao, Joseph A. Kovacs, and Angelique Biancotto
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Adult ,CD4-Positive T-Lymphocytes ,T cell ,Immunology ,Population ,HIV Infections ,Biology ,medicine.disease_cause ,Microbiology ,HIV Long-Term Survivors ,Immunophenotyping ,Immunity ,Virology ,medicine ,Humans ,Intestinal Mucosa ,education ,Immunity, Mucosal ,education.field_of_study ,Monocyte ,Middle Aged ,Simian immunodeficiency virus ,Ki-67 Antigen ,medicine.anatomical_structure ,Mucosal immunology ,Insect Science ,HIV-1 ,Th17 Cells ,Pathogenesis and Immunity ,Viral load - Abstract
During acute human immunodeficiency virus (HIV) infection, there is a massive depletion of CD4 + T cells in the gut mucosa that can be reversed to various degrees with antiretroviral therapy. Th17 cells have been implicated in mucosal immunity to extracellular bacteria, and preservation of this subset may support gut mucosal immune recovery. However, this possibility has not yet been evaluated in HIV-1-infected long-term nonprogressors (LTNPs), who maintain high CD4 + T cell counts and suppress viral replication in the absence of antiretroviral therapy. In this study, we evaluated the immunophenotype and function of CD4 + T cells in peripheral blood and gut mucosa of HIV-uninfected controls, LTNPs, and HIV-1-infected individuals treated with prolonged antiretroviral therapy (ART) (VL [viral load]+ T cell populations, including Th17 and cycling subsets, in the gut mucosa and a preserved T cell population expressing gut homing molecules in the peripheral blood. In addition, we observed no evidence of higher monocyte activation in LTNPs than in HIV-infected (HIV − ) controls. These data suggest that, similar to nonpathogenic simian immunodeficiency virus (SIV) infection, LTNPs preserve the balance of CD4 + T cell populations in blood and gut mucosa, which may contribute to the lack of disease progression observed in these patients.
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- 2011
19. The Effect of Intermittent IL-2 Therapy on CD4 T Cells in the Gut in HIV-1–Infected Patients
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Joseph A. Kovacs, Emily J. Ciccone, Peter J. Mannon, Cheryl Chairez, Michael D. Yao, Irini Sereti, Sarah W. Read, and Richard T. Davey
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Adult ,CD4-Positive T-Lymphocytes ,Interleukin 2 ,Anti-HIV Agents ,medicine.medical_treatment ,CD2 Antigens ,HIV Infections ,Article ,Virus ,Antiretroviral Therapy, Highly Active ,Immunopathology ,medicine ,Humans ,Pharmacology (medical) ,IL-2 receptor ,Whole blood ,Gastrointestinal tract ,biology ,Middle Aged ,biology.organism_classification ,Gastrointestinal Tract ,Ki-67 Antigen ,Treatment Outcome ,Infectious Diseases ,Cytokine ,Immunology ,Lentivirus ,Interleukin-2 ,medicine.drug - Abstract
We sought to determine the effects of interleukin-2 administered in combination with antiretroviral therapy (ART) on CD4+ T cells in the gut. Lymphocytes from whole blood, colon, and terminal ileum of HIV-infected adults treated with interleukin-2 and ART or ART alone were examined. There were no differences between groups in the proportion of CD4+ T cells or in expression of CD25 or Ki67 by CD4+ T cells in the gut. Although IL-2 administration leads to expansion of peripheral blood CD4+ T cells, there is no alteration in the proportion or activation of CD4+ T cells in the gut mucosa.
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- 2011
20. CD4 T Cell Survival after Intermittent Interleukin‐2 Therapy Is Predictive of an Increase in the CD4 T Cell Count of HIV‐Infected Patients
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Marjorie Bosche, Chiung Yu Huang, Sharat Srinivasula, Joseph A. Kovacs, Jorge A. Tavel, Richard T. Davey, Haleem J. Issaq, Rosanne Burke, William Sachau, H. Clifford Lane, Joseph W. Adelsberger, Sarah W. Read, Stephen D. Fox, Richard A. Lempicki, Michele Di Mascio, and Irini Sereti
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Interleukin 2 ,Helper T lymphocyte ,Cell growth ,medicine.medical_treatment ,Interleukin ,T lymphocyte ,Biology ,Infectious Diseases ,Cytokine ,Aldesleukin ,Immunology ,medicine ,Immunology and Allergy ,IL-2 receptor ,medicine.drug - Abstract
Administration of interleukin (IL)-2 to human immunodeficiency virus (HIV)-infected patients leads to significant increases in CD4 T cell counts. We previously have shown that IL-2 induces increased proliferation and survival of CD4 T cells. Deuterium labeling studies were undertaken to study the relationship between IL-2-induced increases in the CD4 T cell count and the effects of IL-2 on cell proliferation and survival. A strong inverse correlation was noted between the rate of decay of the label in CD4 cells and increases in CD4 cell counts (R =or- 0.67; P
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- 2008
21. Opportunistic Infections and Mortality: Still Room for Improvement
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Sarah W. Read and Henry Masur
- Subjects
Adult ,Male ,medicine.medical_specialty ,Adolescent ,Opportunistic infection ,Retinitis ,HIV Infections ,Pneumocystis pneumonia ,Editorial Commentaries ,Young Adult ,Acquired immunodeficiency syndrome (AIDS) ,Leukoencephalopathies ,Risk Factors ,Antiretroviral Therapy, Highly Active ,medicine ,Immunology and Allergy ,Humans ,Intensive care medicine ,Sarcoma, Kaposi ,Proportional Hazards Models ,Acquired Immunodeficiency Syndrome ,AIDS-Related Opportunistic Infections ,Septic shock ,business.industry ,Pneumonia, Pneumocystis ,Middle Aged ,medicine.disease ,Survival Analysis ,Clinical trial ,Infectious Diseases ,Cerebritis ,Female ,San Francisco ,medicine.symptom ,business ,Pentamidine ,medicine.drug ,Follow-Up Studies - Abstract
Among the accomplishments having the greatest impact during the first decade of the AIDS epidemic was the rapid development of effective tools and strategies to diagnose, treat, and prevent opportunistic infections. Prior to 1981, clinicians had little experience with managing infections such as pneumocystis pneumonia, Toxoplasma cerebritis, cytomegalovirus (CMV) retinitis, disseminated Mycobacterium avium complex infection, and chronic diarrhea due to cryptosporidia or microsporidia. Highly effective drugs to treat CMV and M. avium complex infection had not been developed for clinical practice, and many physicians used intravenous pentamidine, a relatively toxic drug, to treat pneumocystis pneumonia. Aided by randomized prospective clinical trials and the development of national guidelines to rapidly disseminate new information [1], clinicians quickly learned how to recognize and treat these syndromes and diseases. In the eras when no antiretroviral therapy (ART) was available or when ART was limited to single or dual nucleoside agents, median survival times after the diagnosis of the first AIDS-associated opportunistic infection were very limited, ranging from 2 to 22 months, depending on the infection [2]. Human immunodeficiency virus (HIV) testing was not widely available, and most patients presented to healthcare providers with an opportunistic infection. Accordingly, most patients had profoundly depressed CD4 + T-cell counts at the time of presentation. There were limited programs to support retention in care for HIV-infected patients and no effective treatments for restoring immunologic function. In the late 1990s, with the development and availability of more-effective ART, immunity could be more effectively and durably restored, and health outcomes improved dramatically. To supplement the Ryan White Act of 1990 [3],more federal and local programs were developed to support retention in care. The management of opportunistic infections was improved by developing new molecular diagnostic tests, by developing new drugs, and by completing well-designed prospective studies. Medical support improved, especially in critical care departments where ventilator management, treatment for septic shock, and management of intracranial pressure, for in
- Published
- 2015
22. Progress Toward Curing HIV Infections With Hematopoietic Stem Cell Transplantation
- Author
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Clifford Lane, Jeffrey S. Rice, Anjali Singh, Stephen T. Smiley, Sarah W. Read, Opendra Sharma, and Diana Finzi
- Subjects
Microbiology (medical) ,medicine.medical_specialty ,Biomedical Research ,business.industry ,medicine.medical_treatment ,Human immunodeficiency virus (HIV) ,Hematopoietic Stem Cell Transplantation ,Cancer ,virus diseases ,HIV Infections ,Hematopoietic stem cell transplantation ,medicine.disease ,medicine.disease_cause ,Antiretroviral therapy ,Virus ,Transplantation ,surgical procedures, operative ,Infectious Diseases ,Immunology ,medicine ,HIV/AIDS ,Humans ,Intensive care medicine ,business - Abstract
Combination antiretroviral therapy can suppress human immunodeficiency virus (HIV) infection but cannot completely eradicate the virus. A major obstacle in the quest for a cure is the difficulty in targeting and measuring latently infected cells. To date, a single person seems to have been cured of HIV. Hematopoietic stem cell transplantation (HSCT) preceded this cancer patient's long-term sustained HIV remission, but researchers have been unable to replicate this cure, and the mechanisms that led to HIV remission remain to be established. In February 2014, the National Institute of Allergy and Infectious Diseases sponsored a workshop that provided a venue for in-depth discussion of whether HSCT could be exploited to cure HIV in cancer patients requiring such procedures. Participants also discussed how HSCT might be applied to a broader community of HIV-infected persons in whom the risks of HSCT currently outweigh the likelihood and benefits of HIV cure.
- Published
- 2014
23. Sevelamer Does Not Decrease Lipopolysaccharide or Soluble CD14 Levels But Decreases Soluble Tissue Factor, Low-Density Lipoprotein (LDL) Cholesterol, and Oxidized LDL Cholesterol Levels in Individuals With Untreated HIV Infection
- Author
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Steven G. Deeks, Rajesh T. Gandhi, Randall Tressler, Cara C. Wilson, Janet Robinson, Michael M. Lederman, Netanya G. Sandler, Daniel C. Douek, Andrew I. Choi, Alan L. Landay, Jeffrey M. Jacobson, Robert W. Coombs, Sarah W. Read, Derek M. Fine, Xinyan Zhang, Nicholas T. Funderburg, and Ronald J. Bosch
- Subjects
Adult ,Lipopolysaccharides ,Male ,medicine.medical_specialty ,Population ,Lipopolysaccharide Receptors ,Inflammation ,HIV Infections ,Sevelamer ,Thromboplastin ,chemistry.chemical_compound ,Major Articles and Brief Reports ,Young Adult ,Internal medicine ,medicine ,Polyamines ,Immunology and Allergy ,Humans ,education ,Interleukin 6 ,education.field_of_study ,biology ,Cholesterol ,Cardiovascular Agents ,Cholesterol, LDL ,Middle Aged ,Lipoproteins, LDL ,Infectious Diseases ,Endocrinology ,Treatment Outcome ,chemistry ,Cardiovascular Diseases ,Low-density lipoprotein ,Bacterial Translocation ,Cardiovascular agent ,biology.protein ,medicine.symptom ,medicine.drug ,Lipoprotein - Abstract
AIDS-related complications and mortality have decreased dramatically in the combination antiretroviral therapy (cART) era, but the risk of cardiovascular disease and other morbidities linked to chronic immune dysfunction and inflammation remains high [1]. Increased CD8 T-cell activation and inflammatory markers are associated with impaired CD4 T-cell recovery and excess mortality in ART recipients [1, 2]. Systemic translocation of microbial products such as lipopolysaccharide (LPS) across a permeable gut mucosa may contribute to persistent inflammation [2]. Individuals with chronic human immunodeficiency virus (HIV) infection have increased circulating levels of LPS, LPS-binding protein (LBP), and soluble CD14 (sCD14), an LPS coreceptor [2]. ART decreases but does not normalize these levels [2]. Thus, an agent that decreases levels of LPS and its inflammatory consequences may improve clinical outcomes in HIV infection. Sevelamer carbonate, a phosphate-lowering drug, decreases circulating LPS levels in patients with renal insufficiency, possibly by binding chylomicron-LPS complexes and preventing their reabsorption; in this population, sevelamer also reduces levels of sCD14, interleukin 6 (IL-6), C-reactive protein (CRP), and total and low-density lipoprotein (LDL) cholesterol [3–6]. These effects may contribute to the decreased mortality risk observed in sevelamer-treated patients undergoing dialysis [7]. Given the possible role of microbial translocation in HIV-associated inflammation and the potential for its reversal by sevelamer, we performed a single-arm, open-label clinical trial (AIDS Clinical Trials Group [ACTG] A5296), to test the hypothesis that 8 weeks of sevelamer treatment would decrease plasma LPS and sCD14 levels. We studied its effects in subjects who were not receiving cART because (1) sevelamer-cART interactions are unknown, (2) sevelamer might exacerbate tenofovir's phosphate-lowering effect, and (3) microbial translocation is more consistently elevated in untreated disease, increasing the likelihood of seeing an effect.
- Published
- 2014
24. HIV Infection and the Gut: Scarred for Life?
- Author
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Sarah W. Read and Irini Sereti
- Subjects
Lamina propria ,Effector ,business.industry ,T cell ,Simian immunodeficiency virus ,medicine.disease_cause ,Pathogenesis ,Chronic infection ,Infectious Diseases ,medicine.anatomical_structure ,Lymphatic system ,Antigen ,Immunology ,medicine ,Immunology and Allergy ,business - Abstract
Over the past decade, the gut-associated lymphocytes have been shown to play a critical role in the early pathogenesis of HIV infection. Because of constant exposure to foreign antigens, the gut contains an abundance of activated effector memory CD4+ T cells that express CCR5 and are highly susceptible to HIV infection [1]. Primary HIV infections and simian immunodeficiency virus (SIV) infections lead to rapid and profound depletion of these cells [2-4], which is more pronounced than the depletion in peripheral blood or other lymphoid tissue and persists throughout the course of untreated infection. The administration of antiretroviral therapy during chronic infection is highly effective in increasing the number of CD4+ T cells and decreasing the proportion of activated T cells in peripheral blood. However, significant delay in CD4+ T cell restoration maybe seen in the gut, particularly in the lamina propria [5] . Despite the slow or incomplete resolution of the profound abnormalities seen in the gut mucosa of HIV-infected patients, a clear connection to clinical outcome in
- Published
- 2008
25. Comparison of illumina and 454 deep sequencing in participants failing raltegravir-based antiretroviral therapy
- Author
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Jonathan Z Li, Brad Chapman, Patrick Charlebois, Oliver Hofmann, Brian Weiner, Alyssa J Porter, Reshmi Samuel, Saran Vardhanabhuti, Lu Zheng, Joseph Eron, Babafemi Taiwo, Michael C Zody, Matthew R Henn, Daniel R Kuritzkes, Winston Hide, ACTG A5262 Study Team, Cara C Wilson, Baiba I Berzins, Edward P Acosta, Barbara Bastow, Peter S Kim, Sarah W Read, Jennifer Janik, Debra S Meres, Michael M Lederman, Lori Mong-Kryspin, Karl E Shaw, Louis G Zimmerman, Randi Leavitt, Guy De La Rosa, and Amy Jennings
- Subjects
Anti-HIV Agents ,Retrovirology and HIV immunopathogenesis ,Integrase inhibitor ,lcsh:Medicine ,Genomics ,HIV Infections ,Viral diseases ,Biology ,Biostatistics ,Microbiology ,DNA sequencing ,Deep sequencing ,Raltegravir Potassium ,Virology ,Drug Resistance, Viral ,medicine ,Humans ,Treatment Failure ,Genome Sequencing ,lcsh:Science ,Illumina dye sequencing ,Multidisciplinary ,lcsh:R ,Statistics ,High-Throughput Nucleotide Sequencing ,Computational Biology ,HIV ,HIV diagnosis and management ,Raltegravir ,Antivirals ,Pyrrolidinones ,3. Good health ,Mutation ,HIV-1 ,Pyrosequencing ,Medicine ,Infectious diseases ,lcsh:Q ,Sequence Analysis ,Mathematics ,medicine.drug ,Research Article - Abstract
Background The impact of raltegravir-resistant HIV-1 minority variants (MVs) on raltegravir treatment failure is unknown. Illumina sequencing offers greater throughput than 454, but sequence analysis tools for viral sequencing are needed. We evaluated Illumina and 454 for the detection of HIV-1 raltegravir-resistant MVs. Methods A5262 was a single-arm study of raltegravir and darunavir/ritonavir in treatment-naive patients. Pre-treatment plasma was obtained from 5 participants with raltegravir resistance at the time of virologic failure. A control library was created by pooling integrase clones at predefined proportions. Multiplexed sequencing was performed with Illumina and 454 platforms at comparable costs. Illumina sequence analysis was performed with the novel snp-assess tool and 454 sequencing was analyzed with V-Phaser. Results Illumina sequencing resulted in significantly higher sequence coverage and a 0.095% limit of detection. Illumina accurately detected all MVs in the control library at ≥0.5% and 7/10 MVs expected at 0.1%. 454 sequencing failed to detect any MVs at 0.1% with 5 false positive calls. For MVs detected in the patient samples by both 454 and Illumina, the correlation in the detected variant frequencies was high (R2 = 0.92, P
- Published
- 2013
26. Nanotechnology and HIV: potential applications for treatment and prevention
- Author
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Sarah W. Read and Peter S. Kim
- Subjects
Anti-HIV Agents ,Biomedical Engineering ,Human immunodeficiency virus (HIV) ,Medicine (miscellaneous) ,Bioengineering ,Nanotechnology ,HIV Infections ,medicine.disease_cause ,Drug Delivery Systems ,Acquired immunodeficiency syndrome (AIDS) ,Microbicide ,Pandemic ,medicine ,Animals ,Humans ,Dosing ,Drug toxicity ,Cause of death ,AIDS Vaccines ,business.industry ,virus diseases ,medicine.disease ,Nanostructures ,Life expectancy ,business - Abstract
HIV/AIDS is a global pandemic and is the leading infectious cause of death among adults. Although antiretroviral (ARV) therapy has dramatically improved the quality of life and increased the life expectancy of those infected with HIV, life-long suppressive treatment is required and a cure for HIV infection remains elusive; frequency of dosing and drug toxicity as well as the development of viral resistance pose additional limitations. Furthermore, preventative measures such as a vaccine or microbicide are urgently needed to curb the rate of new infections. The capabilities inherent to nanotechnology hold much potential for impact in the field of HIV treatment and prevention. This article reviews the potential for the multidisciplinary field of nanotechnology to advance the fields of HIV treatment and prevention.
- Published
- 2010
27. CD4+ T cell responses to interleukin-2 administration in HIV-infected patients are directly related to the baseline level of immune activation
- Author
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Vinay K. Aggarwal, H. Clifford Lane, Rebecca DerSimonian, Hiromi Imamichi, Joseph A. Kovacs, Julia A. Metcalf, Peter Sklar, Richard T. Davey, Sarah W. Read, Meena S. Ramchandani, Jorge A. Tavel, Irini Sereti, and Ven Natarajan
- Subjects
Interleukin 2 ,Adult ,CD4-Positive T-Lymphocytes ,Male ,Cellular immunity ,medicine.medical_specialty ,T cell ,HIV Infections ,Biology ,CD8-Positive T-Lymphocytes ,Aldesleukin ,Internal medicine ,medicine ,Immunology and Allergy ,Humans ,IL-2 receptor ,Interleukin-2 Receptor alpha Subunit ,FOXP3 ,T lymphocyte ,Middle Aged ,Viral Load ,Infectious Diseases ,Endocrinology ,medicine.anatomical_structure ,Anti-Retroviral Agents ,Gene Expression Regulation ,Case-Control Studies ,Immunology ,Interleukin-2 ,Female ,CD8 ,medicine.drug - Abstract
Background. Intermittent interleukin (IL)-2 administration to human immunodeficiency virus (HIV)-infected patients leads to CD4 + T cell expansions. The factors potentially affecting these expansions were investigated in the present study. Methods. A matched (for baseline CD4 + T cell count) case-control study was designed. Nonresponders (NRs) were defined as patients with a ≤10% increase in CD4+ T cell count 2 months after the third IL-2 cycle (week 24), compared with that at baseline (week 0). Control subjects experienced a ≥50% increase in CD4 + T cell count at week 24. Immunophenotype, Ki67 and forkhead box protein P3 (FoxP3) expression, and T cell receptor excision circle (TREC) measurements in T cells were evaluated at weeks 0 and 24 in both groups. Results. Control subjects and NRs did not differ significantly at baseline in age, viral load, CD4+ T cell count, nadir CD4 + T cell count, or CD8 + T cell count. At week 0, NRs had lower TREC levels per 1 X 10 6 T cells and higher levels of T cell proliferation and activation than did control subjects. At week 24, both groups experienced decreases in T cell proliferation and increases in CD25 and FoxP3 expression on CD4 + T cells, with TREC levels per 1 X 10 6 CD4 + T cells decreasing significantly only in control subjects. Conclusions. Increased immune activation can adversely affect CD4+ T cell expansions after IL-2 administration. Despite the lack of expansion, other evidence of IL-2-induced biological activity was observed.
- Published
- 2006
28. Decreased CD127 expression on T Cells in HIV-1-infected adults receiving antiretroviral therapy with or without intermittent IL-2 therapy
- Author
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Randy Stevens, Julia A. Metcalf, H. Clifford Lane, Adam Rupert, Jeanette Higgins, Irini Sereti, Sarah W. Read, and Martha Nason
- Subjects
Interleukin 2 ,Adult ,Male ,medicine.medical_specialty ,Anti-HIV Agents ,medicine.medical_treatment ,T-Lymphocytes ,Statistics as Topic ,HIV Infections ,Gastroenterology ,Internal medicine ,Immunopathology ,Antiretroviral Therapy, Highly Active ,Medicine ,Cytotoxic T cell ,Humans ,Pharmacology (medical) ,IL-2 receptor ,Interleukin-7 receptor ,Aged ,Receptors, Interleukin-7 ,business.industry ,Interleukin-7 ,virus diseases ,Receptors, Interleukin-2 ,T lymphocyte ,Immunotherapy ,Middle Aged ,Flow Cytometry ,Lymphocyte Subsets ,Infectious Diseases ,Cytokine ,Immunology ,Multivariate Analysis ,Interleukin-2 ,Female ,business ,medicine.drug - Abstract
BACKGROUND The interleukin-7 (IL-7)/IL-7 receptor alpha (IL-7Ralpha) system is an important regulator of T-cell homeostasis. We evaluated the IL-7/IL-7Ralpha system in a large cohort of HIV-infected patients, including a subset treated with intermittent IL-2. METHODS IL-7 serum levels and CD127 (IL-7Ralpha) expression on T cells were evaluated in a cross-sectional study of 36 healthy volunteers, 151 HIV-infected patients, and 83 HIV-infected patients who had received IL-2 therapy. Multivariate regression models were used to determine predictors of CD127 expression. RESULTS HIV-infected patients had higher IL-7 levels compared with healthy volunteers (P = 0.022) and IL-2-treated patients (P = 0.012). CD127 expression was significantly lower on CD4 and CD8 T cells of HIV-infected patients compared with healthy volunteers (P = 0.008 and P < 0.001, respectively), and CD127 median fluorescence intensity was lowest on CD4 T cells in IL-2-treated patients (P < 0.001 compared with HIV-infected patients). The proportion of naive and effector memory/effector T cells were significant predictors of CD127 expression on T cells. IL-2 immunotherapy led to the expansion of a CD25/CD127-low subset of CD4 T cells. CONCLUSIONS CD127 expression on T cells remains low in HIV-infected patients despite antiretroviral therapy, reflecting persistent aberration in the subset composition of the T-cell pool.
- Published
- 2006
29. Delayed sample processing leads to marked decreases in measured plasma IL-7 levels
- Author
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Angeline O'Shea, Randy Stevens, Adam Rupert, Sarah W. Read, and Irini Sereti
- Subjects
medicine.medical_specialty ,business.industry ,Chemistry ,Interleukin-7 ,Sample processing ,Enzyme-Linked Immunosorbent Assay ,Plasma ,Specimen Handling ,Infectious Diseases ,Text mining ,Endocrinology ,Reference Values ,Internal medicine ,medicine ,Humans ,Pharmacology (medical) ,business - Published
- 2006
30. Comparison of illumina and 454 deep sequencing in participants failing raltegravir-based antiretroviral therapy.
- Author
-
Jonathan Z Li, Brad Chapman, Patrick Charlebois, Oliver Hofmann, Brian Weiner, Alyssa J Porter, Reshmi Samuel, Saran Vardhanabhuti, Lu Zheng, Joseph Eron, Babafemi Taiwo, Michael C Zody, Matthew R Henn, Daniel R Kuritzkes, Winston Hide, ACTG A5262 Study Team, Cara C Wilson, Baiba I Berzins, Edward P Acosta, Barbara Bastow, Peter S Kim, Sarah W Read, Jennifer Janik, Debra S Meres, Michael M Lederman, Lori Mong-Kryspin, Karl E Shaw, Louis G Zimmerman, Randi Leavitt, Guy De La Rosa, and Amy Jennings
- Subjects
Medicine ,Science - Abstract
The impact of raltegravir-resistant HIV-1 minority variants (MVs) on raltegravir treatment failure is unknown. Illumina sequencing offers greater throughput than 454, but sequence analysis tools for viral sequencing are needed. We evaluated Illumina and 454 for the detection of HIV-1 raltegravir-resistant MVs.A5262 was a single-arm study of raltegravir and darunavir/ritonavir in treatment-naïve patients. Pre-treatment plasma was obtained from 5 participants with raltegravir resistance at the time of virologic failure. A control library was created by pooling integrase clones at predefined proportions. Multiplexed sequencing was performed with Illumina and 454 platforms at comparable costs. Illumina sequence analysis was performed with the novel snp-assess tool and 454 sequencing was analyzed with V-Phaser.Illumina sequencing resulted in significantly higher sequence coverage and a 0.095% limit of detection. Illumina accurately detected all MVs in the control library at ≥0.5% and 7/10 MVs expected at 0.1%. 454 sequencing failed to detect any MVs at 0.1% with 5 false positive calls. For MVs detected in the patient samples by both 454 and Illumina, the correlation in the detected variant frequencies was high (R2 = 0.92, P
- Published
- 2014
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