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Human Immunodeficiency Virus Replication and Genotypic Resistance in Blood and Lymph Nodes after a Year of Potent Antiretroviral Therapy

D. Richman, H. Günthard, D. Havlir, 1998, Journal of Virology.

Dynamics of total, linear nonintegrated, and integrated HIV-1 DNA in vivo and in vitro.

R. Haubrich, R. Shafer, D. Richman, 2008, The Journal of infectious diseases.

Persistence of Transmitted Drug Resistance among Subjects with Primary Human Immunodeficiency Virus Infection

D. Richman, S. Little, S. Frost, 2008, Journal of Virology.

Anatomic Compartments as a Barrier to HIV Cure

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Early Virologic Failure and the Development of Antiretroviral Drug Resistance Mutations in HIV-Infected Ugandan Children

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Genetic Composition of Human Immunodeficiency Virus Type 1 in Cerebrospinal Fluid and Blood without Treatment and during Failing Antiretroviral Therapy

D. Richman, I. Grant, H. Günthard, 2005, Journal of Virology.

Prevalence and predictive value of intermittent viremia with combination hiv therapy.

M. Hirsch, D. Richman, H. Günthard, 2001, JAMA.

Role of MicroRNA Modulation in the Interferon-α/Ribavirin Suppression of HIV-1 In Vivo

H. Günthard, B. Ledergerber, S. Pillai, 2014, PloS one.

HIV latency is reversed by ACSS2-driven histone crotonylation

D. Margolis, G. Jiang, J. Wong, 2018, The Journal of clinical investigation.

Novel RT-ddPCR assays for measuring the levels of subgenomic and genomic SARS-CoV-2 transcripts

J. Wong, M. Ott, H. Martin, 2021, Methods.

Recovery of replication-competent HIV despite prolonged suppression of plasma viremia.

D. Richman, H. Günthard, D. Havlir, 1997, Science.

HIV latency in isolated patient CD4+ T cells may be due to blocks in HIV transcriptional elongation, completion, and splicing

J. Wong, H. Lampiris, S. Joshi, 2018, Science Translational Medicine.

Synergistic Reactivation of Latent HIV Expression by Ingenol-3-Angelate, PEP005, Targeted NF-kB Signaling in Combination with JQ1 Induced p-TEFb Activation

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Occurrence of etravirine/rilpivirine-specific resistance mutations selected by efavirenz and nevirapine in Kenyan patients with non-B HIV-1 subtypes failing antiretroviral therapy

H. Hatano, D. Havlir, E. Sinclair, 2014, AIDS.

Differences in HIV burden and immune activation within the gut of HIV-positive patients receiving suppressive antiretroviral therapy.

C. B. Hare, H. Günthard, D. Havlir, 2010, The Journal of infectious diseases.

Gut and blood differ in constitutive blocks to HIV transcription, suggesting tissue-specific differences in the mechanisms that govern HIV latency

H. Hatano, J. Wong, S. Deeks, 2018, PLoS pathogens.

Advantages of using the QIAshredder instead of restriction digestion to prepare DNA for droplet digital PCR.

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Positive in vivo selection of the HIV-1 envelope protein gp120 occurs at surface-exposed regions.

A. Trkola, H. Günthard, R. Weber, 2007, The Journal of infectious diseases.

Genetic attributes of cerebrospinal fluid-derived HIV-1 env.

D. Richman, I. Grant, H. Günthard, 2006, Brain : a journal of neurology.

Comparative performance of high-density oligonucleotide sequencing and dideoxynucleotide sequencing of HIV type 1 pol from clinical samples.

D. Richman, H. Günthard, D. Havlir, 1998, AIDS Research and Human Retroviruses.

Multiple sites in HIV-1 reverse transcriptase associated with virological response to combination therapy

D. Richman, H. Günthard, V. Johnson, 2000, AIDS.

Genetic features of cerebrospinal fluid-derived subtype B HIV-1 tat

D. Richman, R. Heaton, D. Clifford, 2012, Journal of NeuroVirology.

Estimating selection pressures on HIV‐1 using phylogenetic likelihood models

Sergei L. Kosakovsky Pond, D. Richman, S. Little, 2008, Statistics in medicine.

Latently-infected CD4+ T cells are enriched for HIV-1 Tat variants with impaired transactivation activity.

Susan Little, Douglas Richman, D. Richman, 2009, Virology.

The Gut Mucosal Viral Reservoir in HIV-Infected Patients Is Not the Major Source of Rebound Plasma Viremia following Interruption of Highly Active Antiretroviral Therapy

Michael D. George, M. Syvanen, J. Wong, 2011, Journal of Virology.

Higher HIV-1 genetic diversity is associated with AIDS and neuropsychological impairment.

Sergei L. Kosakovsky Pond, D. Richman, I. Grant, 2012, Virology.

Low Human Immunodeficiency Virus Envelope Diversity Correlates with Low In Vitro Replication Capacity and Predicts Spontaneous Control of Plasma Viremia after Treatment Interruptions

A. Trkola, H. Günthard, R. Weber, 2005, Journal of Virology.

Clade B HIV-1 superinfection with wild-type virus after primary infection with drug-resistant clade B virus

D. Richman, S. Little, C. Petropoulos, 2003, AIDS.

Lack of neutralizing antibody response to HIV-1 predisposes to superinfection.

D. Richman, S. Little, T. Wrin, 2006, Virology.

Chapter 34 – HIV Drug Susceptibility Testing

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Transcriptomic Signatures of Human Immunodeficiency Virus Post-Treatment Control

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Characterization of the HIV-1 transcription profile after romidepsin administration in ART-suppressed individuals

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Comparative Analysis of Measures of Viral Reservoirs in HIV-1 Eradication Studies

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Predictors of residual viremia in HIV-infected patients successfully treated with efavirenz and lamivudine plus either tenofovir or stavudine.

D. Havlir, J. Wong, M. Strain, 2005, The Journal of infectious diseases.

Prospective Antiretroviral Treatment of Asymptomatic, HIV-1 Infected Controllers

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Reduction of HIV-1 in blood and lymph nodes following potent antiretroviral therapy and the virologic correlates of treatment failure.

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Intrinsic Anti-HIV-1 Immunity Effects of Alpha Interferon Treatment on

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Effects of Alpha Interferon Treatment on Intrinsic Anti-HIV-1 Immunity In Vivo

H. Günthard, B. Ledergerber, S. Pillai, 2013, Journal of Virology.

Effects of interferon-g treatment on anti-HIV-1 intrinsic immunity in vivo 3 4

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Saliva as a testing specimen with or without pooling for SARS-CoV-2 detection by multiplex RT-PCR test

J. Wong, M. Sha, L. Pastor, 2020, medRxiv.

Spatiotemporal dynamics of HIV propagation.

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Effect of treatment, during primary infection, on establishment and clearance of cellular reservoirs of HIV-1.

Matthew C Strain, Diane V Havlir, D. Richman, 2005, The Journal of infectious diseases.

Reduced Susceptibility of Human Immunodeficiency Virus Type 1 (HIV-1) from Patients with Primary HIV Infection to Nonnucleoside Reverse Transcriptase Inhibitors Is Associated with Variation at Novel Amino Acid Sites

D. Richman, S. Little, C. Petropoulos, 2000, Journal of Virology.

Productive Infection Maintains a Dynamic Steady State of Residual Viremia in Human Immunodeficiency Virus Type 1-Infected Persons Treated with Suppressive Antiretroviral Therapy for Five Years

Mario Clerici, Diane V. Havlir, D. Havlir, 2003, Journal of Virology.

Reactivation of HIV latency by a newly modified Ingenol derivative via protein kinase C&dgr;–NF-&kgr;B signaling

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Unexpected low-level viremia among HIV-infected Ugandan adults with untreated active tuberculosis.

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Incidence of HIV superinfection following primary infection.

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Expression profile of host restriction factors in HIV-1 elite controllers

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Challenges in Detecting HIV Persistence during Potentially Curative Interventions: A Study of the Berlin Patient

R. Siliciano, D. Richman, E. Boritz, 2013, PLoS pathogens.

Tissue‐specific differences in HIV DNA levels and mechanisms that govern HIV transcription in blood, gut, genital tract and liver in ART‐treated women

R. Greenblatt, P. Tien, J. Wong, 2021, Journal of the International AIDS Society.

HIV drug resistance acquired through superinfection

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Reversibility of the pathological changes in the follicular dendritic cell network with treatment of HIV-1 infection.

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The distribution of HIV DNA and RNA in cell subsets differs in gut and blood of HIV-positive patients on ART: implications for viral persistence.

D. Havlir, E. Sinclair, J. Wong, 2013, The Journal of infectious diseases.

Effect of raltegravir-containing intensification on HIV burden and T-cell activation in multiple gut sites of HIV-positive adults on suppressive antiretroviral therapy

C. B. Hare, H. Günthard, D. Havlir, 2010, AIDS.

Gag p24 is a Marker of HIV Expression in Tissues and Correlates with Immune Response.

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Impact of Allogeneic Hematopoietic Stem Cell Transplantation on the HIV Reservoir and Immune Response in 3 HIV-Infected Individuals

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Heterogeneity in HIV and cellular transcription profiles in cell line models of latent and productive infection: implications for HIV latency

A. Butte, W. Greene, D. Aran, 2019, Retrovirology.

New Assay Reveals Vast Excess of Defective over Intact HIV-1 Transcripts in Antiretroviral Therapy-Suppressed Individuals

J. Wong, S. Deeks, R. Hoh, 2022, Journal of virology.

HIV Exploits Antiviral Host Innate GCN2-ATF4 Signaling for Establishing Viral Replication Early in Infection

G. Jiang, J. Wong, S. Dandekar, 2017, mBio.

Site-Specific Differences in T Cell Frequencies and Phenotypes in the Blood and Gut of HIV-Uninfected and ART-Treated HIV+ Adults

D. Havlir, A. Haase, Qingsheng Li, 2015, PloS one.

Sequence clusters in human immunodeficiency virus type 1 reverse transcriptase are associated with subsequent virological response to antiretroviral therapy.

D. Richman, H. Günthard, V. Johnson, 1999, The Journal of infectious diseases.

NeuroAIDS in Africa

C. Adebamowo, I. Grant, R. Paul, 2010, Journal of NeuroVirology.

Attenuated and nonproductive viral transcription in the lymphatic tissue of HIV-1-infected patients receiving potent antiretroviral therapy.

H. Günthard, R. Weber, M. Fischer, 2004, The Journal of infectious diseases.

HIV-subtype A is associated with poorer neuropsychological performance compared with subtype D in antiretroviral therapy-naive Ugandan children

M. Boivin, D. Havlir, P. Bangirana, 2010, AIDS.

HIV RNA suppression among HIV-infected Ugandan children with measles.

P. Rosenthal, D. Havlir, J. Wong, 2008, Journal of acquired immune deficiency syndromes.

Turning up the volume on mutational pressure: Is more of a good thing always better? (A case study of HIV-1 Vif and APOBEC3)

S. Pillai, J. Wong, J. Barbour, 2008, Retrovirology.

Disruption of latent HIV in vivo during the clearance of actinic keratosis by ingenol mebutate.

G. Jiang, J. Wong, D. Hartigan-O’Connor, 2019, JCI Insight.

Relative efficacy of T cell stimuli as inducers of productive HIV-1 replication in latently infected CD4 lymphocytes from patients on suppressive cART.

Mary K. Lewinski, D. Richman, C. Spina, 2017, Virology.

Long-term persistence of transmitted HIV drug resistance in male genital tract secretions: implications for secondary transmission.

Simon D W Frost, D. Richman, S. Little, 2007, The Journal of infectious diseases.

Effect of left ventricular dysfunction and viral load on risk of sudden cardiac death in patients with human immunodeficiency virus.

E. Vittinghoff, D. Havlir, J. Wong, 2014, The American journal of cardiology.

Persistent HIV-1-specific cellular responses despite prolonged therapeutic viral suppression

D. Richman, S. Rowland-Jones, Steven Wolinsky, 2002, AIDS.

Discordance Between Peripheral and Colonic Markers of Inflammation During Suppressive ART

M. J. Broadhurst, M. Lederman, P. Loke, 2014, Journal of acquired immune deficiency syndromes.

Blood and guts and HIV: preferential HIV persistence in GI mucosa.

J. Wong, S. Yukl, 2008, The Journal of infectious diseases.

Pleocytosis is associated with disruption of HIV compartmentalization between blood and cerebral spinal fluid viral populations.

D. Richman, S. Frost, R. Ellis, 2009, Virology.

Novel RT-ddPCR assays for simultaneous quantification of multiple noncoding and coding regions of SARS-CoV-2 RNA

J. Wong, M. Ott, G. R. Kumar, 2021, Journal of Virological Methods.

Novel RT-ddPCR Assays for determining the transcriptional profile of SARS-CoV-2

J. Wong, M. Ott, G. R. Kumar, 2021, bioRxiv.

Residual Cell-Associated Unspliced HIV-1 Rna in Peripheral Blood of Patients on Potent Antiretroviral Therapy Represents Intracellular Transcripts

A. Trkola, H. Günthard, R. Weber, 2001, Antiviral therapy.

Genetic features of cerebrospinal fluid-derived subtype B HIV-1 tat

D. Richman, I. Grant, R. Heaton, 2012, Journal of NeuroVirology.

Higher selection pressure from antiretroviral drugs in vivo results in increased evolutionary distance in HIV-1 pol.

D. Richman, H. Günthard, V. Johnson, 1999, Virology.

ABX464 decreases the total HIV reservoir and HIV transcription initiation in CD4 + T cells from HIV-infected ART-suppressed individuals.

J. Martinez-Picado, J. Wong, S. Yukl, 2021, Clinical Infectious Diseases.

Antiretroviral resistance during successful therapy of HIV type 1 infection.

E. Rosenberg, R. Siliciano, B. Walker, 2000, Proceedings of the National Academy of Sciences of the United States of America.

Erratum: Higher selection pressure from antiretroviral drugs in vivo results in increased evolutionary distance in HIV-1 pol (Virology (1999) 259:1 (154-165))

D. Richman, V. Johnson, D. Kuritzkes, 1999 .

The distribution of HIV DNA and RNA in cell subsets differs in gut and blood of HIV-positive patients on ART: implications for viral persistence.

D. Havlir, E. Sinclair, J. Wong, 2013, The Journal of infectious diseases.

Stimulating the RIG-I pathway to kill cells in the latent HIV reservoir following viral reactivation

W. Greene, D. Havlir, J. Wong, 2016, Nature Medicine.

Disruption of latent HIV in vivo during the clearance of actinic keratosis by ingenol mebutate.

G. Jiang, J. Wong, D. Hartigan-O’Connor, 2019, JCI insight.

HIV-associated neurocognitive disorders before and during the era of combination antiretroviral therapy: differences in rates, nature, and predictors

Michael J. Taylor, C. Fennema-Notestine, T. Jernigan, 2010, Journal of NeuroVirology.

HIV-associated neurocognitive disorders persist in the era of potent antiretroviral therapy

Michael J. Taylor, F. Vaida, C. Fennema-Notestine, 2010, Neurology.

NeuroAIDS in Africa

C. Adebamowo, I. Grant, D. Clifford, 2010, Journal of NeuroVirology.