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List of works by Davey Smith

"[It] is now my responsibility to fulfill that wish:" Clinical and rapid autopsy staff members' experiences and perceptions of HIV reservoir research at the end of life

scientific article published on 18 November 2020

A combined screening platform for HIV treatment failure and resistance

scientific article

A longitudinal systems immunologic investigation of acute Zika virus infection in an individual infected while traveling to Caracas, Venezuela

article

A novel codon insert in protease of clade B HIV type 1.

scientific article published on May 2009

A novel mutant 10Ala/Arg together with mutant 144Ser/Arg of hepatitis B virus X protein involved in hepatitis B virus-related hepatocarcinogenesis in HepG2 cell lines

scientific article published on 16 December 2015

A practical online tool to estimate antiretroviral coverage for HIV infected and susceptible populations needed to reduce local HIV epidemics.

scientific article published on 24 June 2016

A public health model for the molecular surveillance of HIV transmission in San Diego, California

scientific article published on January 2009

A randomized controlled clinical trial on the impact of CCR5 blockade with maraviroc in early infection on T-cell dynamics

scientific article

Active duty military personnel presenting for care at a Gay Men's Health Clinic.

scientific article published in January 2008

Altruism: Scoping review of the literature and future directions for HIV cure-related research

scientific article published on 25 August 2020

An altered intestinal mucosal microbiome in HIV-1 infection is associated with mucosal and systemic immune activation and endotoxemia.

scientific article

An initial screening for HIV-associated neurocognitive disorders of HIV-1 infected patients in China ⬇️

scientific article published on March 13, 2012

Antibody response to Achromobacter xylosoxidans during HIV infection is associated with lower CD4 levels and increased lymphocyte activation.

scientific article published on 30 October 2013

Antigen-Specific Adaptive Immunity to SARS-CoV-2 in Acute COVID-19 and Associations with Age and Disease Severity

scientific article published on 16 September 2020

Antigen-specific antibody Fc glycosylation enhances humoral immunity via the recruitment of complement

scientific article published on 01 August 2018

Antiretroviral Drugs for Treatment and Prevention of HIV Infection in Adults: 2016 Recommendations of the International Antiviral Society-USA Panel

scientific article published on July 2016

Antiretroviral Drugs for Treatment and Prevention of HIV Infection in Adults: 2018 Recommendations of the International Antiviral Society-USA Panel

scientific article published on 01 July 2018

Apolipoprotein E4 genotype does not increase risk of HIV-associated neurocognitive disorders

scientific article published on 14 February 2013

Associations between phylogenetic clustering and HLA profile among HIV-infected individuals in San Diego, California.

scientific article

Associations between virologic and immunologic dynamics in blood and in the male genital tract.

scientific article published on 23 November 2011

Asymptomatic CMV Replication During Early Human Immunodeficiency Virus (HIV) Infection Is Associated With Lower CD4/CD8 Ratio During HIV Treatment.

scientific article published on 6 September 2016

Asymptomatic HIV-associated neurocognitive impairment increases risk for symptomatic decline

scientific article

Baseline Genotype Testing to Assess Drug Resistance Before Beginning HIV Treatment-Reply

scientific article published on 01 November 2018

Biomarkers of chemotaxis and inflammation in cerebrospinal fluid and serum in individuals with HIV-1 subtype C versus B.

scientific article published on 11 July 2016

Blood-CSF barrier and compartmentalization of CNS cellular immune response in HIV infection.

scientific article published on 3 November 2016

Brief Report: Effect of CMV and HIV Transcription on CD57 and PD-1 T-Cell Expression During Suppressive ART.

scientific article published on 25 January 2016

Can research at the end of life be a useful tool to advance HIV cure?

scientific article published on 14 October 2016

Cell-free mitochondrial DNA in CSF is associated with early viral rebound, inflammation, and severity of neurocognitive deficits in HIV infection

scientific article published on October 2015

Cerebrospinal fluid can be used for HIV genotyping when it fails in blood

scientific article

Challenges in Quantifying Cytosine Methylation in the HIV Provirus

article

Characteristics of Resting-State Functional Connectivity in HIV-Associated Neurocognitive Disorder

scientific article published on 22 April 2016

Characterizing the multiplicity of HIV founder variants during sexual transmission among MSM.

scientific article

Circulating HIV DNA Correlates With Neurocognitive Impairment in Older HIV-infected Adults on Suppressive ART

scientific article

Clear Links Between Starting Methamphetamine and Increasing Sexual Risk Behavior: A Cohort Study Among Men Who Have Sex With Men.

scientific article published on 2 November 2015

Clinical utility of HIV standard genotyping among antiretroviral-naive individuals with unknown duration of infection.

scientific article published on 28 December 2006

Clinical, virologic, and immunologic correlates of HIV-1 intraclade B dual infection among men who have sex with men.

scientific article published on January 2012

Codon volatility does not reflect selective pressure on the HIV-1 genome

article

Colorectal Disorders in Acute Human Immunodeficiency Virus Infection: A Case Series.

scientific article published on 29 January 2016

Community HIV-1 drug resistance is associated with transmitted drug resistance

scientific article

Comparative Analysis of Cell-Associated HIV DNA Levels in Cerebrospinal Fluid and Peripheral Blood by Droplet Digital PCR

scientific article published on 2 October 2015

Comparison of algorithms that interpret genotypic HIV-1 drug resistance to determine the prevalence of transmitted drug resistance

scientific article published on April 2008

Comparison of methods to detect HIV dual infection

scientific article

Compartmentalized HIV rebound in the central nervous system after interruption of antiretroviral therapy

scientific article published on July 2016

Comprehensive analysis of T cell immunodominance and immunoprevalence of SARS-CoV-2 epitopes in COVID-19 cases

scientific article published on 09 December 2020

Comprehensive analysis of T cell immunodominance and immunoprevalence of SARS-CoV-2 epitopes in COVID-19 cases

scientific article

Continue antiretroviral therapy during virologic failure?

scientific article published on 01 February 2002

Correction: Geographic and Temporal Trends in the Molecular Epidemiology and Genetic Mechanisms of Transmitted HIV-1 Drug Resistance: An Individual-Patient- and Sequence-Level Meta-Analysis

scientific article

Corrigendum: Circulating HIV DNA Correlates With Neurocognitive Impairment in Older HIV-infected Adults on Suppressive ART.

scientific article published on 19 January 2016

Cost savings associated with testing of antibodies, antigens, and nucleic acids for diagnosis of acute HIV infection

scientific article

Cytokines in CSF correlate with HIV-associated neurocognitive disorders in the post-HAART era in China.

scientific article

Cytomegalovirus DNA in semen and blood is associated with higher levels of proviral HIV DNA.

scientific article published on 28 December 2012

Cytomegalovirus replication in semen is associated with higher levels of proviral HIV DNA and CD4+ T cell activation during antiretroviral treatment.

scientific article

Deep sequencing reveals minor protease resistance mutations in patients failing a protease inhibitor regimen.

scientific article

Detection of minority resistance during early HIV-1 infection: natural variation and spurious detection rather than transmission and evolution of multiple viral variants.

scientific article

Developing and evaluating comprehensive HIV infection control strategies: issues and challenges

scientific article

Development and use of personalized bacteriophage-based therapeutic cocktails to treat a patient with a disseminated resistant Acinetobacter baumannii infection

scientific article published on 14 August 2017

Development and validation of the San Diego Early Test Score to predict acute and early HIV infection risk in men who have sex with men.

scientific article

Distinct cytokine/chemokine network in semen and blood characterize different stages of HIV infection

scientific article published on 10 November 2015

Do Sexual Minorities Face Greater Risk for Sexual Harassment, Ever and at School, in Adolescence?: Findings From a 2019 Cross-Sectional Study of U.S. Adults

scientific article published on 22 June 2020

Dual-mixed HIV-1 coreceptor tropism and HIV-associated neurocognitive deficits

scientific article published on October 2013

Dynamic of CSF and serum biomarkers in HIV-1 subtype C encephalitis with CNS genetic compartmentalization-case study

scientific article published on 28 February 2017

Early Antiretroviral Therapy Is Associated with Lower HIV DNA Molecular Diversity and Lower Inflammation in Cerebrospinal Fluid but Does Not Prevent the Establishment of Compartmentalized HIV DNA Populations

scientific article

Epigenetic alterations in the brain associated with HIV-1 infection and methamphetamine dependence

scientific article

Estimating selection pressures on HIV-1 using phylogenetic likelihood models.

scientific article published on October 2008

Ethical considerations for HIV cure-related research at the end of life

article

Etravirine and Rilpivirine Drug Resistance Among HIV-1 Subtype C Infected Children Failing Non-Nucleoside Reverse Transcriptase Inhibitor-Based Regimens in South India

scientific article published on 21 November 2016

Evaluation of an HIV nucleic acid testing program with automated Internet and voicemail systems to deliver results.

scientific article

Evaluation of pooled rapid HIV antibody screening of patients admitted to a San Diego Hospital.

scientific article

Fatal Saccharomyces cerevisiae aortic graft infection

scientific article

First Appearance of HIV-1 CRF07_BC and CRF08_BC Outside China

scientific article published on 8 July 2016

First description of two new HIV-1 recombinant forms CRF82_cpx and CRF83_cpx among drug users in Northern Myanmar.

scientific article published on 30 August 2016

Gene expression before HAART initiation predicts HIV-infected individuals at risk of poor CD4+ T-cell recovery

scientific article

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

scientific article

Genetic composition of human immunodeficiency virus type 1 in cerebrospinal fluid and blood without treatment and during failing antiretroviral therapy.

scientific article

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

scientific article published on 13 April 2012

Genital Cytomegalovirus Replication Predicts Syphilis Acquisition among HIV-1 Infected Men Who Have Sex with Men.

scientific article published on 10 June 2015

Geographic and temporal trends in the molecular epidemiology and genetic mechanisms of transmitted HIV-1 drug resistance: an individual-patient- and sequence-level meta-analysis

scientific article

Global NeuroAIDS roundtable

scientific article published on 26 January 2013

Growth of HIV-1 Molecular Transmission Clusters in New York City

article

Gut Lactobacillales are associated with higher CD4 and less microbial translocation during HIV infection

scientific article

Gut dendritic cell activation links an altered colonic microbiome to mucosal and systemic T-cell activation in untreated HIV-1 infection

scientific article published on 29 April 2015

HIV Prevalence and Risk Behaviors in Male to Female (MTF) Transgender Persons in Tijuana, Mexico.

scientific article published on 14 October 2017

HIV Prevention Method Preferences Within Sexual Partnerships Reported by HIV-Negative MSM and TW in Tijuana, Mexico

scientific article published on 01 March 2020

HIV Trafficking Between Blood and Semen During Early Untreated HIV Infection.

scientific article published on 11 August 2016

HIV migration between blood and cerebrospinal fluid or semen over time

scientific article published on 02 December 2013

HIV migration between blood plasma and cellular subsets before and after HIV therapy

scientific article published on 8 September 2015

HIV superinfection

scientific article

HIV treatment decisions and transmitted drug resistance.

scientific article

HIV, HBV and HCV prevalence among high risk populations in South India

scientific article published on 22 November 2017

HIV-1 drug resistance before initiation or re-initiation of first-line ART in eight regions of Mexico: a sub-nationally representative survey

scientific article published on 01 April 2019

HIV-associated neurocognitive disorder in HIV-infected Koreans: the Korean NeuroAIDS Project

scientific article published on 24 February 2014

HIV-associated neurocognitive disorder is associated with HIV-1 dual infection

scientific article

Hepatitis B virus compartmentalization in the cerebrospinal fluid of HIV-infected patients

scientific article published on 23 November 2014

Herd Immunity Likely Protected the Men who have Sex with Men in Recent Hepatitis A Outbreak in San Diego CA

scientific article published on 01 March 2019

Herpes viruses and HIV-1 drug resistance mutations influence the virologic and immunologic milieu of the male genital tract.

scientific article published on January 2013

Heterogeneous clearance rates of long-lived lymphocytes infected with HIV: intrinsic stability predicts lifelong persistence

scholarly article

High prevalence of hepatitis delta virus among patients with chronic hepatitis B virus infection and HIV-1 in an intermediate hepatitis B virus endemic region.

scientific article

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

scientific article

Identification of Two New HIV-1 Circulating Recombinant Forms (CRF87_cpx and CRF88_BC) from Reported Unique Recombinant Forms in Asia.

scientific article published on 20 October 2016

Identification of putative unique immunogenic ZIKV and DENV1-4 peptides for diagnostic cellular based tests.

scientific article published on 24 July 2017

Immunological memory to SARS-CoV-2 assessed for up to 8 months after infection

scientific article published on 06 January 2021

Impact of seminal cytomegalovirus replication on HIV-1 dynamics between blood and semen

scientific article

In-depth Sampling of High-risk Populations to Characterize HIV Transmission Epidemics Among Young MSM Using PrEP in France and Quebec

article

Incidence and prevalence of intrasubtype HIV-1 dual infection in at-risk men in the United States.

scientific article

Incidence of HIV superinfection following primary infection.

scientific article

Increased HIV-1 superinfection risk in carriers of specific human leukocyte antigen alleles

scientific article

Influenza Vaccination Can Broadly Activate the HIV Reservoir During Antiretroviral Therapy

scientific article published on 01 November 2018

Isolation of potent SARS-CoV-2 neutralizing antibodies and protection from disease in a small animal model

scientific article published on 15 June 2020

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

scientific article published on 7 September 2006

Latent Toxoplasma Infection and Higher Toxoplasma gondii Immunoglobulin G Levels Are Associated With Worse Neurocognitive Functioning in HIV-Infected Adults.

scientific article

Less is more: an adaptive branch-site random effects model for efficient detection of episodic diversifying selection

scientific article

Lessons learned from the Last Gift study: ethical and practical challenges faced while conducting HIV cure-related research at the end of life

scientific article published in 2022

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

scientific article published on 19 June 2007

Longitudinal Viral Dynamics in Semen During Early HIV Infection.

scientific article published on February 2017

Lyophilized visually readable loop-mediated isothermal reverse transcriptase nucleic acid amplification test for detection Ebola Zaire RNA.

scientific article

Maintenance of Nef-mediated modulation of major histocompatibility complex class I and CD4 after sexual transmission of human immunodeficiency virus type 1

scientific article published on 28 February 2007

Mathematical modeling of HIV prevention measures including pre-exposure prophylaxis on HIV incidence in South Korea.

scientific article published on 24 March 2014

Mechanism of Action of Methotrexate Against Zika Virus

scientific article published on 10 April 2019

Methamphetamine Use in HIV-infected Individuals Affects T-cell Function and Viral Outcome during Suppressive Antiretroviral Therapy.

scientific article

Mitochondrial injury and cognitive function in HIV infection and methamphetamine use.

scientific article published on 23 January 2016

Molecular Features of the V1-V4 Coding Region of Sexually Transmitted Human Immunodeficiency Virus Type 1.

scientific article published on 17 April 2017

Molecular and pathologic insights from latent HIV-1 infection in the human brain

scientific article published on 13 March 2013

Molecular epidemiology identifies HIV transmission networks associated with younger age and heterosexual exposure among Korean individuals

scientific article

Mutations in the major hydrophilic region (MHR) of hepatitis B virus genotype C in North China

scientific article published on December 2012

Neurobehavioral Disturbances During Acute and Early HIV Infection

scientific article published on March 2016

Neurocognitive change in the era of HIV combination antiretroviral therapy: the longitudinal CHARTER study

scientific article

Neurocognitive functioning in acute or early HIV infection

scientific article

Neurocognitive impairment in HIV-1 clade C- versus B-infected individuals in Southern Brazil.

scientific article

Next generation sequencing improves detection of drug resistance mutations in infants after PMTCT failure

scientific article

No Substantial Evidence for Sexual Transmission of Minority HIV Drug Resistance Mutations in Men Who Have Sex with Men.

scientific article

No evidence of posttreatment control after early initiation of antiretroviral therapy

scientific article

Novel codon insert in HIV type 1 clade B reverse transcriptase associated with low-level viremia during antiretroviral therapy.

scientific article published on 05 October 2013

Now is the Time to Study the Timing of Influenza Vaccine

scientific article

Nucleoside reverse transcriptase inhibitor resistance mutations associated with first-line stavudine-containing antiretroviral therapy: programmatic implications for countries phasing out stavudine

scientific article published on June 2013

Number of mutations within CTL‐defined epitopes of the hepatitis B Virus (HBV) core region is associated with HBV disease progression ⬇️

scientific article published on December 1, 2011

Occult HBV infection in HIV infected adults and evaluation of pooled NAT for HBV.

scientific article published on 6 January 2018

Persistence of transmitted drug resistance among subjects with primary human immunodeficiency virus infection.

scientific article published on 19 March 2008

Phylogenetic relatedness of HIV-1 donor and recipient populations.

scientific article published on 11 January 2013

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

scientific article published on 18 December 2008

Pooled Nucleic Acid Testing to Detect Antiretroviral Treatment Failure in HIV-Infected Patients in Mozambique

scientific article

Pooled nucleic acid testing to detect antiretroviral treatment failure in Mexico.

scientific article

Pooled nucleic acid testing to identify antiretroviral treatment failure during HIV infection in Seoul, South Korea.

scientific article

Pooled nucleic acid testing to identify antiretroviral treatment failure during HIV infection.

scientific article

Pooling Strategies to Reduce the Cost of HIV-1 RNA Load Monitoring in a Resource-Limited Setting ⬇️

scientific article published on January 15, 2011

Pre-exposure prophylaxis accessibility research and evaluation (PrEPARE Study)

scientific article

Prevalence and T-cell phenotype of slow HIV disease progressors with robust HIV replication.

scientific article

Prevalence of Transmitted HIV Drug Resistance Among Recently Infected Persons in San Diego, CA 1996-2013.

scientific article

Quantifying Public Interest in Police Reforms by Mining Internet Search Data Following George Floyd's Death

scientific article published on 21 October 2020

Rapid progression to decompensated cirrhosis, liver transplant, and death in HIV-infected men after primary hepatitis C virus infection.

scientific article

Real-world impact of neurocognitive deficits in acute and early HIV infection

scientific article

Repeat HIV-testing is associated with an increase in behavioral risk among men who have sex with men: a cohort study.

scientific article

Replication of Human Herpesviruses Is Associated with Higher HIV DNA Levels during Antiretroviral Therapy Started at Early Phases of HIV Infection.

scientific article published on 3 February 2016

Reply to Haddow et al.

scientific article published on 2 February 2015

Reply to Mounzer and DiNubile.

scientific article published on 10 May 2013

Response to: Is Burnout Infectious? Understanding Drivers of Burnout and Job Satisfaction Among Academic Infectious Diseases Physicians

scientific article published on 24 August 2019

Role of seminal shedding of herpesviruses in HIV Type 1 Transmission

scientific article

Running with scissors: using antiretroviral therapy without monitoring viral load

scientific article published on 01 May 2008

SHMT2 and the BRCC36/BRISC deubiquitinase regulate HIV-1 Tat K63-ubiquitylation and destruction by autophagy.

scientific article published on 23 May 2018

Screening for acute HIV infection in community-based settings: Cost-effectiveness and impact on transmissions.

scientific article published on 10 August 2016

Select resistance-associated mutations in blood are associated with lower CSF viral loads and better neuropsychological performance

scientific article

Selective and cross-reactive SARS-CoV-2 T cell epitopes in unexposed humans

scientific article

Semen-specific genetic characteristics of human immunodeficiency virus type 1 env.

scientific article

Seminal Shedding of CMV and HIV Transmission among Men Who Have Sex with Men.

scientific article published on 7 July 2015

Serosorting can potentially increase HIV transmissions.

scientific article

Sexual transmission of predicted CXCR4-tropic HIV-1 likely originating from the source partner's seminal cells.

scientific article

Shedding of HIV and human herpesviruses in the semen of effectively treated HIV-1-infected men who have sex with men.

scientific article published on 17 April 2013

Shedding of Hepatitis C Virus in Semen of Human Immunodeficiency Virus-Infected Men.

scientific article published on 11 March 2016

Short Communication: HIV-1 Transmission Networks Across South Korea.

scientific article published on 27 March 2017

Short Communication: Increase of HIV-1 K103N Transmitted Drug Resistance and Its Association with Efavirenz Use in South Korea

scientific article published on 28 April 2015

Short communication: prospective comparison of qualitative versus quantitative polymerase chain reaction for monitoring virologic treatment failure in HIV-infected patients.

scientific article

Signs or Symptoms of Acute HIV Infection in a Cohort Undergoing Community-Based Screening.

scientific article published on February 2016

Simulation of pooled nucleic acid testing to identify antiretroviral treatment failure during HIV infection in Seoul, South Korea

scientific article published on March 2013

Size, Composition, and Evolution of HIV DNA Populations during Early Antiretroviral Therapy and Intensification with Maraviroc.

scientific article

Standard vaccines increase HIV-1 transcription during antiretroviral therapy.

scientific article published on 16 July 2016

Substance use is a risk factor for neurocognitive deficits and neuropsychiatric distress in acute and early HIV infection

scientific article published on 19 December 2012

Subtype associations with HIV-associated neurocognitive disorder in China

scientific article published on 26 August 2015

Suicide Risk Behaviors Among Sexual Minority Adolescents in the United States, 2015.

scientific article

Targeting HIV Prevention Based on Molecular Epidemiology Among Deeply Sampled Subnetworks of Men Who Have Sex With Men

scientific article

Targets of T cell responses to SARS-CoV-2 coronavirus in humans with COVID-19 disease and unexposed individuals

scientific article published on 20 May 2020

Temporal variation in HIV-specific IgG subclass Abs during acute infection differentiates spontaneous controllers from chronic progressors.

scientific article published on 12 December 2017

The Control of HIV After Antiretroviral Medication Pause (CHAMP) Study: Posttreatment Controllers Identified From 14 Clinical Studies

scientific article published on 01 November 2018

The Importance of HIV Research for Transgender and Gender Non-Binary Individuals

scientific article

The Sordid Affair Between Human Herpesvirus and HIV

scientific article

The Use of High Performance Liquid Chromatography to Speciate and Characterize the Epidemiology of Mycobacteria

scientific article published on October 2011

The dynamics of the HIV epidemic among men who have sex with men (MSM) from 2005 to 2012 in Shenzhen, China

scientific article published on 29 June 2016

The need for treatment interruption studies and biomarker identification in the search for an HIV cure.

scientific article published in July 2015

The origins of sexually transmitted HIV among men who have sex with men.

scientific article

The price of tenofovir-emtricitabine undermines the cost-effectiveness and advancement of pre-exposure prophylaxis ⬇️

scientific article published on November 28, 2011

The use of pooled viral load testing to identify antiretroviral treatment failure

scientific article

Timing Matters - Influenza Vaccination to HIV-Infected Patients

scientific article published on 26 January 2016

Tissue-Specific HIV-1 Infection: Why it Matters ⬇️

scientific article published on July 1, 2011

Transient and asymptomatic meningitis in human immunodeficiency virus-1 subtype C: a case study of genetic compartmentalization and biomarker dynamics

scientific article published on 07 September 2018

Using phylogeography to characterize the origins of the HIV-1 subtype F epidemic in Romania ⬇️

scientific article published on March 23, 2011

Using ultradeep pyrosequencing to study HIV-1 coreceptor usage in primary and dual infection.

scientific article published on 18 April 2013

Validation of the GeneXpert® CT/NG Assay for use with Male Pharyngeal and Rectal Swabs

scientific article published on March 2016

Viral pneumonia as a serious complication of etanercept therapy

scientific article published on 01 January 2002

Virologic correlates of anti-CMV IgG levels in HIV-1-infected men.

scientific article published on 20 August 2013

Willingness to participate in HIV research at the end of life (EOL)

scientific article published on 23 July 2018

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