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List of works by Deenan Pillay

"If you are here at the clinic, you do not know how many people need help in the community": Perspectives of home-based HIV services from health care workers in rural KwaZulu-Natal, South Africa in the era of universal test-and-treat

scientific article published in PLoS ONE

"They have this not care - don't care attitude:" A Mixed Methods Study Evaluating Community Readiness for Oral PrEP in Adolescent Girls and Young Women in a Rural Area of South Africa

scientific article published on 07 September 2020

'Dark matter', second waves and epidemiological modelling

scientific article published on 01 December 2020

2011 update of the drug resistance mutations in HIV-1 ⬇️

scientific article published on November 1, 2011

2014 Update of the drug resistance mutations in HIV-1

scientific article

2017 Update of the Drug Resistance Mutations in HIV-1.

scientific article published on December 2017

844. Engagement in HIV Care as an Avenue to Primary Care in Rural South Africa: Results from the Vukuzazi Population Health Platform

A High HIV-1 Strain Variability in London, UK, Revealed by Full-Genome Analysis: Results from the ICONIC Project

article

A high HIV-1 strain variability in London, UK, revealed by full-genome analysis: Results from the ICONIC project

scientific article published in February 2018

A randomized controlled trial of genotypic HIV drug resistance testing in HIV-1-infected children: the PERA (PENTA 8) trial.

scientific article published in January 2006

An association between K65R and HIV-1 subtype C viruses in patients treated with multiple NRTIs.

scientific article published in July 2017

Analysis of HIV-1 variation in blood and semen during treatment and treatment interruption

scientific article published in December 2002

Analysis of natural sequence variation and covariation in human immunodeficiency virus type 1 integrase

scientific article published on 2 July 2008

Antiretroviral Therapy to Prevent HIV Acquisition in Serodiscordant Couples in a Hyperendemic Community in Rural South Africa

scientific article published on 20 May 2016

Antiretroviral drug resistance testing in adult HIV-1 infection: 2008 recommendations of an International AIDS Society-USA panel

scientific article published on July 2008

Antiretroviral drug resistance testing in adult HIV-1 infection: 2008 recommendations of an International AIDS Society-USA panel.

scientific article published on August 2008

Are previous treatment interruptions associated with higher viral rebound rates in patients with viral suppression?

scientific article published in January 2008

Assessment of automated genotyping protocols as tools for surveillance of HIV-1 genetic diversity

scientific article published in July 2006

BMI and All-Cause Mortality in a Population-Based Cohort in Rural South Africa

scientific article published on 18 October 2020

British HIV Association guidelines for the treatment of HIV-1-infected adults with antiretroviral therapy 2008

article

CD4 counts and the risk of systemic non-Hodgkin's lymphoma in individuals with HIV in the UK.

scientific article published on 31 March 2009

Can linear regression modeling help clinicians in the interpretation of genotypic resistance data? An application to derive a lopinavir-score

scientific article

Causes and consequences of incomplete HIV RNA suppression in clinical trials

scientific article published on September 2009

Cervicovaginal HIV-1 shedding in women taking antiretroviral therapy in Burkina Faso: a longitudinal study

scientific article published on February 2014

Clinical outcome in resistant HIV-2 infection treated with raltegravir and maraviroc

scientific article published on 6 March 2010

Clinically validated genotype analysis: guiding principles and statistical concerns.

scientific article published in August 2004

Combination antiretroviral therapy and cell-cell spread of wild-type and drug-resistant human immunodeficiency virus-1.

scientific article published on 28 January 2017

Combination antiviral therapy: but which combination, and why?

scientific article published on 01 December 2000

Community-based antiretroviral therapy versus standard clinic-based services for HIV in South Africa and Uganda (DO ART): a randomised trial

scientific article published on 01 October 2020

Comparative assessment of five trials of universal HIV testing and treatment in sub-Saharan Africa

scientific article published in January 2018

Contribution of Gag and protease to variation in susceptibility to protease inhibitors between different strains of subtype B human immunodeficiency virus type 1.

scientific article published on 30 October 2013

Correction: Evidence for Reduced Drug Susceptibility without Emergence of Major Protease Mutations following Protease Inhibitor Monotherapy Failure in the SARA Trial

scientific article

Cost-effectiveness of HIV drug resistance testing to inform switching to second line antiretroviral therapy in low income settings

scientific article

Cost-effectiveness of public-health policy options in the presence of pretreatment NNRTI drug resistance in sub-Saharan Africa: a modelling study

scientific article

Cost-effectiveness of tenofovir instead of zidovudine for use in first-line antiretroviral therapy in settings without virological monitoring

scientific article published in 2012

Current patterns in the epidemiology of primary HIV drug resistance in North America and Europe

scientific article

Deep learning of HIV field-based rapid tests

scientific article published on 17 June 2021

Demonstration of sustained drug-resistant human immunodeficiency virus type 1 lineages circulating among treatment-naïve individuals

scientific article published on 21 January 2009

Detection of resistance mutations and CD4 slopes in individuals experiencing sustained virological failure

scientific article published on 2 November 2014

Determinants of HIV drug resistance mutations in plasma virus after treatment interruption

scientific article published in December 2005

Determinants of HIV-1 transmission in men who have sex with men: a combined clinical, epidemiological and phylogenetic approach

scientific article published in July 2010

Determinants of time from HIV infection to linkage-to-care in rural KwaZulu-Natal, South Africa

scientific article published on March 2017

Development and optimization of an internally controlled dried blood spot assay for surveillance of human immunodeficiency virus type-1 drug resistance

scientific article published on 16 October 2008

Digital technologies in the public-health response to COVID-19

scientific article published on 07 August 2020

Disappointments in the treatment of acute viral infections: what's the problem?

scientific article published on 01 December 2002

Discordances between interpretation algorithms for genotypic resistance to protease and reverse transcriptase inhibitors of human immunodeficiency virus are subtype dependent

scientific article

Disease-associated XMRV sequences are consistent with laboratory contamination

scientific article

Do HIV treatment eligibility expansions crowd out the sickest? Evidence from rural South Africa.

scientific article

Do gifts increase consent to home-based HIV testing? A difference-in-differences study in rural KwaZulu-Natal, South Africa

scientific article published on 10 December 2016

Do patients who are infected with drug-resistant HIV have a different CD4 cell decline after seroconversion? An exploratory analysis in the UK Register of HIV Seroconverters

article

Does antiretroviral therapy use affect the accuracy of HIV rapid diagnostic assays? Experience from a demographic health and surveillance site in rural South Africa

scientific article published on 02 March 2020

Does discordancy between the CD4 count and CD4 percentage in HIV-positive individuals influence outcomes on highly active antiretroviral therapy?

scientific article published in February 2012

Does pregnancy increase the risk of ART-induced hepatotoxicity among HIV-positive women?

scientific article

Drug resistance genotypes predict response to amprenavir-containing regimens in highly drug-experienced HIV-1-infected patients.

scientific article published in August 2003

Drug resistance in human immunodeficiency virus type-1 infected Zambian children using adult fixed dose combination stavudine, lamivudine, and nevirapine

scientific article published in August 2010

Drug resistance mutations for surveillance of transmitted HIV-1 drug-resistance: 2009 update

scientific article

Drug resistance mutations in HIV-1.

scientific article published on November 2003

Early ART Initiation Improves HIV Status Disclosure and Social Support in People Living with HIV, Linked to Care Within a Universal Test and Treat Program in Rural South Africa (ANRS 12249 TasP Trial)

scientific article published on 18 November 2020

Early antiretroviral therapy in children perinatally infected with HIV: a unique opportunity to implement immunotherapeutic approaches to prolong viral remission

scientific article published on 14 July 2015

Effect of HIV-1 subtype on virologic and immunologic response to starting highly active antiretroviral therapy

scientific article published in May 2009

Effect of eliminating CD4-count thresholds on HIV treatment initiation in South Africa: An empirical modeling study

scientific article

Effect of isolated V118I mutation in reverse transcriptase on response to first-line antiretroviral therapy

scientific article

Effect of misclassification of antiretroviral treatment status on the prevalence of transmitted HIV-1 drug resistance

scientific article

Effect of transmitted drug resistance on virological and immunological response to initial combination antiretroviral therapy for HIV (EuroCoord-CHAIN joint project): a European multicohort study

scientific article published on 25 February 2011

Effect on transmission of HIV-1 resistance of timing of implementation of viral load monitoring to determine switches from first to second-line antiretroviral regimens in resource-limited settings

scientific article published on March 2011

Effective immunity and second waves: a dynamic causal modelling study

scientific article published on 30 September 2020

Effectiveness and cost-effectiveness of potential responses to future high levels of transmitted HIV drug resistance in antiretroviral drug-naive populations beginning treatment: modelling study and economic analysis

scientific article published on 14 October 2014

Emergence of a novel subclade of influenza A(H3N2) virus in London, December 2016 to January 2017.

scientific article published on February 2017

Emergence of drug resistance in HIV type 1-infected patients after receipt of first-line highly active antiretroviral therapy: a systematic review of clinical trials

scientific article published on September 2008

Estimated impact of the COVID-19 pandemic on cancer services and excess 1-year mortality in people with cancer and multimorbidity: near real-time data on cancer care, cancer deaths and a population-based cohort study

scientific article published on 17 November 2020

Estimating HIV-1 drug resistance in antiretroviral-treated individuals in the United Kingdom

scientific article published on 12 August 2005

Estimating excess 1- year mortality from COVID-19 according to underlying conditions and age in England: a rapid analysis using NHS health records in 3.8 million adults

scientific article (preprint)

Estimating excess 1-year mortality associated with the COVID-19 pandemic according to underlying conditions and age: a population-based cohort study

scientific article published on 12 May 2020

Ethical considerations in global HIV phylogenetic research

article

Evidence for Reduced Drug Susceptibility without Emergence of Major Protease Mutations following Protease Inhibitor Monotherapy Failure in the SARA Trial

scientific article

Evidence of Self-Sustaining Drug Resistant HIV-1 Lineages Among Untreated Patients in the United Kingdom

scientific article

Evolution of Drug Resistance During 48 Weeks of Zidovudine/Lamivudine/Tenofovir in the Absence of Real-Time Viral Load Monitoring ⬇️

scientific article published on October 1, 2010

Evolution of antiretroviral phenotypic and genotypic drug resistance in antiretroviral-naive HIV-1-infected children treated with abacavir/lamivudine, zidovudine/lamivudine or abacavir/zidovudine, with or without nelfinavir (the PENTA 5 trial).

scientific article

Factors associated with antiretroviral treatment initiation amongst HIV-positive individuals linked to care within a universal test and treat programme: early findings of the ANRS 12249 TasP trial in rural South Africa

scientific article published on January 2016

Factors influencing efavirenz and nevirapine plasma concentration: effect of ethnicity, weight and co-medication.

scientific article published in January 2008

Factors influencing lopinavir and atazanavir plasma concentration

scientific article published on January 2010

Failure to clear persistent vaccine-derived neurovirulent poliovirus infection in an immunodeficient man.

scientific article

Failure to initiate HIV treatment in patients with high CD4 counts: evidence from demographic surveillance in rural South Africa

scientific article published on 21 November 2017

Frequency and patterns of protease gene resistance mutations in HIV-infected patients treated with lopinavir/ritonavir as their first protease inhibitor ⬇️

scientific article published on January 17, 2012

From HIV infection to therapeutic response: a population-based longitudinal HIV cascade-of-care study in KwaZulu-Natal, South Africa

scientific article published on 30 January 2017

From the micro to the macro to improve health: microorganism ecology and society in teaching infectious disease epidemiology

scientific article published on 07 May 2020

Full-genome deep sequencing and phylogenetic analysis of novel human betacoronavirus

scientific article published on May 2013

Full-length HIV-1 Gag determines protease inhibitor susceptibility within in vitro assays

scientific article published on July 2010

Gag determinants of fitness and drug susceptibility in protease inhibitor-resistant human immunodeficiency virus type 1.

scientific article published on 8 July 2009

Gag-Protease Sequence Evolution Following Protease Inhibitor Monotherapy Treatment Failure in HIV-1 Viruses Circulating in East Africa

scientific article

Genetic analysis reveals the complex structure of HIV-1 transmission within defined risk groups

scientific article

Genome-Wide Association Study of HIV Whole Genome Sequences Validated using Drug Resistance

scientific article

Global HIV Antiretroviral Drug Resistance: A Perspective and Report of a National Institute of Allergy and Infectious Diseases Consultation

scientific article published on 17 June 2017

Global trends in antiretroviral resistance in treatment-naive individuals with HIV after rollout of antiretroviral treatment in resource-limited settings: a global collaborative study and meta-regression analysis

scientific article published on 23 July 2012

HIV Type-1 Drug Resistance in Treatment-Naive Patients Monitored Using Minority Species Assays: A Systematic Review and Meta-Analysis ⬇️

scientific article published on January 1, 2011

HIV phylogenetics

scientific article published on September 2007

HIV resistance and the developing world

scientific article published on 7 March 2007

HIV treatment is associated with a two-fold higher probability of raised triglycerides: Pooled Analyses in 21 023 individuals in sub-Saharan Africa ⬇️

article

HIV type 1 in a rural coastal town in Kenya shows multiple introductions with many subtypes and much recombination ⬇️

scientific article published on 19 July 2011

HIV type-1 drug resistance in antiretroviral treatment-naive adults infected with non-B subtype virus in the United Kingdom

scientific article published on January 2010

HIV viral load: the myth of the undetectable?

scientific article

HIV-1 drug resistance before initiation or re-initiation of first-line antiretroviral therapy in low-income and middle-income countries: a systematic review and meta-regression analysis

scientific article published on 30 November 2017

HIV-1 drug resistance in HIV-1-infected children in the United Kingdom from 1998 to 2004.

scientific article published in May 2008

HIV-1 drug resistance mutations emerging on darunavir therapy in PI-naive and -experienced patients in the UK.

scientific article published on 28 September 2016

HIV-1 full-genome phylogenetics of generalized epidemics in sub-Saharan Africa: impact of missing nucleotide characters in next-generation sequences

scientific article published on 25 May 2017

HIV-1 pol gene variation is sufficient for reconstruction of transmissions in the era of antiretroviral therapy

scientific article

HIV-1 protease and reverse transcriptase mutations for drug resistance surveillance

scientific article published on January 2007

HIV-associated central nervous system diseases in the recent combination antiretroviral therapy era.

scientific article published on 15 December 2010

Hare TRIM5α restricts divergent retroviruses and exhibits significant sequence variation from closely related lagomorpha TRIM5 genes

scientific article

Hepatitis B Virus Infection in HIV-Positive Individuals in the UK Collaborative HIV Cohort (UK CHIC) Study ⬇️

scientific article published on November 7, 2012

Hepatitis B serological markers and plasma DNA concentrations

scientific article

Hepatitis C virus quasispecies and pseudotype analysis from acute infection to chronicity in HIV-1 co-infected individuals

scientific article published on 10 March 2016

High HIV incidence and low uptake of HIV prevention services: The context of risk for young male adults prior to DREAMS in rural KwaZulu-Natal, South Africa

scientific article published in PLoS ONE

High level of viral suppression and low switch rate to second-line antiretroviral therapy among HIV-infected adult patients followed over five years: retrospective analysis of the DART trial

scientific article

High rate of HIV resuppression after viral failure on first-line antiretroviral therapy in the absence of switch to second-line therapy

scientific article

Human Immunodeficiency Virus Drug Resistance: 2018 Recommendations of the International Antiviral Society-USA Panel

scientific article published on 01 January 2019

Identification of a transmission chain of HIV type 1 containing drug resistance-associated mutations

scientific article published in May 2003

Impact of HIV Drug Resistance on HIV/AIDS-Associated Mortality, New Infections, and Antiretroviral Therapy Program Costs in Sub-Saharan Africa

scientific article published on 17 February 2017

Impact of HIV-1 subtype and antiretroviral therapy on protease and reverse transcriptase genotype: results of a global collaboration

scientific article

Impact of drug resistance-associated amino acid changes in HIV-1 subtype C on susceptibility to newer nonnucleoside reverse transcriptase inhibitors

scientific article

Impact of early antiretroviral therapy eligibility on HIV acquisition: Household-level evidence from rural South Africa

scientific article published on 13 January 2018

Impact of human immunodeficiency virus type 1 subtypes on virologic response and emergence of drug resistance among children in the Paediatric European Network for Treatment of AIDS (PENTA) 5 trial

scientific article published on 9 August 2002

Impact of next generation sequencing defined HIV pre-treatment drug resistance on virological outcomes in the ANRS 12249 treatment as prevention trial

article

Impact of the N348I mutation in HIV-1 reverse transcriptase on nonnucleoside reverse transcriptase inhibitor resistance in non-subtype B HIV-1.

scientific article published on 31 January 2011

Implementing universal HIV treatment in a high HIV prevalence and rural South African setting - Field experiences and recommendations of health care providers

scientific article published on 20 November 2017

Implications of HIV drug resistance on first- and second-line therapies in resource-limited settings: report from a workshop organized by the Collaborative HIV and Anti-HIV Drug Resistance Network

scientific article published on 5 June 2013

Improving the validity of mathematical models for HIV elimination by incorporating empirical estimates of progression through the HIV treatment cascade

article

Imputing HIV treatment start dates from routine laboratory data in South Africa: a validation study

scientific article

Increasing HIV-1 Drug Resistance Between 2010 and 2012 in Adults Participating in Population-Based HIV Surveillance in Rural KwaZulu-Natal, South Africa

scientific article published on 22 March 2016

Inferring HIV-1 transmission networks and sources of epidemic spread in Africa with deep-sequence phylogenetic analysis

article

Intrapatient Evolutionary Dynamics of Human Immunodeficiency Virus Type 1 in Individuals Undergoing Alternative Treatment Strategies with Reverse Transcriptase Inhibitors

scientific article

Is 1 alanine transaminase >200 IU enough to define an alanine transaminase flare in HIV-infected populations? A new definition derived from a large cohort study

scientific article

Issues in diagnostic testing and monitoring in HIV/viral hepatitis co-infection.

scientific article published on November 2003

Lack of minority K65R-resistant viral populations detected after repeated treatment interruptions of tenofovir/zidovudine and lamivudine in a resource-limited setting

scientific article published in June 2010

Limitations of proposed novel trial design ⬇️

scientific article published on September 10, 2012

Linkage to primary care after home-based blood pressure screening in rural KwaZulu-Natal, South Africa: a population-based cohort study

List randomization for eliciting HIV status and sexual behaviors in rural KwaZulu-Natal, South Africa: a randomized experiment using known true values for validation.

scientific article published on 25 May 2018

Long term probability of detection of HIV-1 drug resistance after starting antiretroviral therapy in routine clinical practice

scientific article

Long-term persistence of primary genotypic resistance after HIV-1 seroconversion

scientific article published in December 2004

Lopinavir/ritonavir monotherapy after 24 weeks of second-line antiretroviral therapy in Africa: a randomized controlled trial (SARA).

scientific article published on 19 July 2012

Low frequency of genotypic resistance in HIV-1-infected patients failing an atazanavir-containing regimen: a clinical cohort study ⬇️

scientific article published on May 27, 2013

Management of paediatric HIV-1 resistance

scientific article published on June 2009

Mass HIV Treatment and Sex Disparities in Life Expectancy: Demographic Surveillance in Rural South Africa

scientific article published on 24 November 2015

Minimal variation in T-20 binding domain of different HIV-1 subtypes from antiretroviral-naive and -experienced patients

scientific article

Moderate to high levels of pre-treatment HIV drug resistance in KwaZulu-Natal Province, South Africa

article

Monitoring of antiretroviral therapy in low-resource settings – Authors' reply

scientific article published in The Lancet

Mutation of a single residue renders human tetherin resistant to HIV-1 Vpu-mediated depletion

scientific article

New Insights on Long-Term Hepatitis B Virus Responses in HIV-Hepatitis B virus Co-infected Patients: Implications for Antiretroviral Management in Hepatitis B virus-Endemic Settings

scientific article published on 01 January 2021

No Evidence That HIV-1 Subtype C Infection Compromises the Efficacy of Tenofovir-Containing Regimens: Cohort Study in the United Kingdom

scientific article published on 24 May 2016

No effect of test and treat on sexual behaviours at population level in rural South Africa

scientific article published on 01 March 2019

No evidence of XMRV or related retroviruses in a London HIV-1-positive patient cohort

scientific article

Nosocomial transmission of influenza: A retrospective cross-sectional study using next generation sequencing at a hospital in England (2012-2014)

scientific article published on 19 September 2019

Occult HIV-1 drug resistance to thymidine analogues following failure of first-line tenofovir combined with a cytosine analogue and nevirapine or efavirenz in sub Saharan Africa: a retrospective multi-centre cohort study

scientific article

Optimal use of maraviroc in clinical practice

scientific article

Outcomes from monitoring of patients on antiretroviral therapy in resource-limited settings with viral load, CD4 cell count, or clinical observation alone: a computer simulation model

scientific article published in April 2008

Outcomes in the First Year after Initiation of First-Line Haart among Heterosexual Men and Women in the Uk Chic Study ⬇️

scientific article published on January 1, 2011

PANGEA-HIV 2: Phylogenetics And Networks for Generalised Epidemics in Africa

article

PANGEA-HIV: phylogenetics for generalised epidemics in Africa

scientific article published on March 2015

Persistence of HIV-1 Transmitted Drug Resistance Mutations ⬇️

scientific article published on July 31, 2013

Persistently high incidence of HIV and poor service uptake in adolescent girls and young women in rural KwaZulu-Natal, South Africa prior to DREAMS

scientific article published in PLoS ONE

Pervasive and non-random recombination in near full-length HIV genomes from Uganda

scientific article published on 01 January 2020

Phylodynamic and phylogeographic patterns of the HIV type 1 subtype F1 parenteral epidemic in Romania

scientific article

Phylogenetic analyses reveal HIV-1 infections between men misclassified as heterosexual transmissions

scientific article

Phylogenetic and Demographic Characterization of Directed HIV-1 Transmission Using Deep Sequences from High-Risk and General Population Cohorts/Groups in Uganda

scientific article published on 18 March 2020

Phylogenetic and demographic characterization of HIV-1 transmission in Madrid, Spain

scientific article published on 2 January 2013

Phylogenetic insights into regional HIV transmission

scientific article published on September 2012

Phylogenetic reconstruction of transmission events from individuals with acute HIV infection: toward more-rigorous epidemiological definitions

scientific article

Phylogenetic studies of transmission dynamics in generalized HIV epidemics: an essential tool where the burden is greatest?

scientific article

Phylogenetic surveillance of viral genetic diversity and the evolving molecular epidemiology of human immunodeficiency virus type 1.

scientific article

Pooled specimens for HIV RNA monitoring: cheaper, but is it reliable?

scientific article published on 16 July 2014

Population trends in the prevalence and patterns of protease resistance related to exposure to unboosted and boosted protease inhibitors.

scientific article published in January 2008

Population-level decline in BMI and systolic blood pressure following mass HIV treatment: Evidence from rural KwaZulu-Natal

scientific article published on 7 December 2016

Positive and negative drug selection pressures on the N348I connection domain mutation: new insights from in vivo data

scientific article

Potential impact of early antiretroviral therapy on transmission.

scientific article

Predicted antiviral activity of tenofovir versus abacavir in combination with a cytosine analogue and the integrase inhibitor dolutegravir in HIV-1-infected South African patients initiating or failing first-line ART

article

Predicted levels of HIV drug resistance: potential impact of expanding diagnosis, retention, and eligibility criteria for antiretroviral therapy initiation

scientific article

Predictors of pregnancy and changes in pregnancy incidence among HIV-positive women accessing HIV clinical care

scientific article

Pregnancy is associated with elevation of liver enzymes in HIV-positive women on antiretroviral therapy

scientific article published on April 2015

Prevalence and effect of pre-treatment drug resistance on the virological response to antiretroviral treatment initiated in HIV-infected children - a EuroCoord-CHAIN-EPPICC joint project

scientific article

Prevalence of sexually transmitted infections among young people in South Africa: A nested survey in a health and demographic surveillance site.

scientific article

Prevalence of transmitted HIV-1 drug resistance and the role of resistance algorithms: data from seroconverters in the CASCADE collaboration from 1987 to 2003.

scientific article

Preventing unintended pregnancy and HIV transmission: effects of the HIV treatment cascade on contraceptive use and choice in rural KwaZulu-Natal

scientific article

Proof-of-Principle for Immune Control of Global HIV-1 Reactivation In Vivo

scientific article published on 16 March 2015

Protease inhibitors effectively block cell-to-cell spread of HIV-1 between T cells

scientific article published on 24 December 2013

Qualitative and quantitative HIV antibodies and viral reservoir size characterization in vertically infected children with virological suppression

scientific article published on 30 December 2016

Quantifying HIV transmission flow between high-prevalence hotspots and surrounding communities: a population-based study in Rakai, Uganda

scientific article published on 14 January 2020

Rapid accumulation of HIV-1 thymidine analogue mutations and phenotypic impact following prolonged viral failure on zidovudine-based first-line ART in sub-Saharan Africa

scientific article

Rate of AIDS diseases or death in HIV-infected antiretroviral therapy-naive individuals with high CD4 cell count

article

Reconstitution of the Epstein-Barr virus-specific cytotoxic T-lymphocyte response following T-cell-depleted myeloablative and nonmyeloablative allogeneic stem cell transplantation

scientific article published in August 2003

Reply to Ambrosioni et al

scientific article published on 01 May 2019

Reply to Cohen et al.

scientific article published on 29 September 2016

Resistance tests: what do clinical trials tell us?

scientific article published on November 1, 2002

Response to antiretroviral therapy (ART): comparing women with previous use of zidovudine monotherapy (ZDVm) in pregnancy with ART naïve women

scientific article

Retention in Care Trajectories of HIV-Positive Individuals Participating in a Universal Test-and-Treat Program in Rural South Africa (ANRS 12249 TasP Trial) ⬇️

article

Risk of extensive virological failure to the three original antiretroviral drug classes over long-term follow-up from the start of therapy in patients with HIV infection: an observational cohort study

scientific article published in The Lancet

Risks and benefits of dolutegravir-based antiretroviral drug regimens in sub-Saharan Africa: a modelling study

Sequential CCR5-Tropic HIV-1 Reactivation from Distinct Cellular Reservoirs following Perturbation of Elite Control

scientific article

Simian immunodeficiency virus envelope glycoprotein counteracts tetherin/BST-2/CD317 by intracellular sequestration

scientific article published on 28 October 2009

Single Genome Analysis for the Detection of Linked Multiclass Drug Resistance Mutations in HIV-1-Infected Children After Failure of Protease Inhibitor-Based First-Line Therapy

scientific article

Sociobehavioral and community predictors of unsuppressed HIV viral load: multilevel results from a hyperendemic rural South African population

scientific article published on 01 March 2019

Sources of social support and sexual behaviour advice for young adults in rural South Africa

scientific article published on 22 November 2018

Suppression of HBV by tenofovir in HBV/HIV coinfected patients: a systematic review and meta-analysis

scientific article

Surveillance of HIV antiretroviral drug resistance in treated individuals in England: 1998-2000.

scientific article published on 28 January 2004

Synonymous genetic polymorphisms within Brazilian human immunodeficiency virus Type 1 subtypes may influence mutational routes to drug resistance

scientific article published on 12 March 2004

Taking connected mobile-health diagnostics of infectious diseases to the field

scientific article published on 27 February 2019

Temporal trends of population viral suppression in the context of Universal Test and Treat: the ANRS 12249 TasP trial in rural South Africa

scientific article published on 01 October 2019

Testing for HIV: concise guidance

scientific article published on 01 October 2009

The Art of HIV Elimination: Past and Present Science

scientific article

The Effect of Antiretroviral Treatment on Health Care Utilization in Rural South Africa: A Population-Based Cohort Study

scientific article

The Effect of HIV and the Modifying Effect of Anti-Retroviral Therapy (ART) on Body Mass Index (BMI) and Blood Pressure Levels in Rural South Africa

scientific article

The HIV-1 subtype C epidemic in South America is linked to the United Kingdom

scientific article

The Impact of HIV Drug Resistance on the Selection of First- and Second-Line ART in Resource-Limited Settings

scientific article published in June 2013

The MONARCH intervention to enhance the quality of antenatal and postnatal primary health services in rural South Africa: protocol for a stepped-wedge cluster-randomised controlled trial

The Role of Phylogenetics as a Tool to Predict the Spread of Resistance

scientific article

The association between detected drug resistance mutations and CD4(+) T-cell decline in HIV-positive individuals maintained on a failing treatment regimen

scientific article published on 19 June 2017

The calibrated population resistance tool: standardized genotypic estimation of transmitted HIV-1 drug resistance

scientific article published on 20 March 2009

The causal effect of childhood measles vaccination on educational attainment: A mother fixed-effects study in rural South Africa

scientific article

The contribution of viral genotype to plasma viral set-point in HIV infection

scientific article

The dynamics of appearance and disappearance of HIV-1 integrase mutations during and after withdrawal of raltegravir therapy

scientific article published on October 2009

The effect of highly active antiretroviral therapy for HIV on the anti-HCV specific humoral immune response

scientific article published on February 2004

The effect of intrinsic stochasticity on transmitted HIV drug resistance patterns

scientific article published on 17 September 2009

The effect of transmitted HIV-1 drug resistance on pre-therapy viral load

scientific article published on July 2010

The effects of antiretroviral therapy on HIV-1 RNA loads in seminal plasma in HIV-positive patients with and without urethritis

article

The evolution of HIV-1 reverse transcriptase in route to acquisition of Q151M multi-drug resistance is complex and involves mutations in multiple domains ⬇️

scientific article

The immunological and virological consequences of planned treatment interruptions in children with HIV infection

scientific article

The impact of ART initiation on household food security over time

scientific article published on 26 November 2017

The impact of continuous quality improvement on coverage of antenatal HIV care tests in rural South Africa: Results of a stepped-wedge cluster-randomised controlled implementation trial

scientific article published on 07 October 2020

The impact of different definitions on the estimated rate of transmitted HIV drug resistance in the United Kingdom

scientific article published in October 2008

The impact of lay counselors on HIV testing rates: quasi-experimental evidence from lay counselor redeployment in KwaZulu-Natal, South Africa

article

The impact of population dynamics on the population HIV care cascade: results from the ANRS 12249 Treatment as Prevention trial in rural KwaZulu-Natal (South Africa)

article

The impact of self-interviews on response patterns for sensitive topics: a randomized trial of electronic delivery methods for a sexual behaviour questionnaire in rural South Africa

scientific article

The impact of transmitted drug resistance on the natural history of HIV infection and response to first-line therapy

scientific article published on January 2006

The prevalence and determinants of the K65R mutation in HIV-1 reverse transcriptase in tenofovir-naive patients

scientific article published in October 2002

The prevalence of darunavir-associated mutations in HIV-1-infected children in the UK

scientific article published in 2011

The priorities for antiviral drug resistance surveillance and research

scientific article published on August 2007

The risk of viral rebound in the year after delivery in women remaining on antiretroviral therapy

scientific article

The virological durability of first-line ART among HIV-positive adult patients in resource limited settings without virological monitoring: a retrospective analysis of DART trial data

scientific article

Three Residues in HIV-1 Matrix Contribute to Protease Inhibitor Susceptibility and Replication Capacity ⬇️

scientific article published on December 13, 2010

Time and Money: The True Costs of Health Care Utilization for Patients Receiving "Free" HIV/Tuberculosis Care and Treatment in Rural KwaZulu-Natal

scientific article published on October 2015

Time trends in drug resistant HIV-1 infections in the United Kingdom up to 2009: multicentre observational study ⬇️

scientific article (publication date: 21 August 2012)

Time trends in primary resistance to HIV drugs in the United Kingdom: multicentre observational study

scientific article

Towards an ultra-rapid smartphone- connected test for infectious diseases.

scientific article published on 20 September 2017

Tracking external introductions of HIV using phylodynamics reveals a major source of infections in rural KwaZulu-Natal, South Africa

article

Transient viral load increases in HIV-infected children in the U.K. and Ireland: what do they mean?

scientific article published on 01 January 2007

Transmission of HIV-1 drug resistance

scientific article published on May 2004

Transmission of HIV-1 during primary infection: relationship to sexual risk and sexually transmitted infections

scientific article published in January 2005

Treatment eligibility and retention in clinical HIV care: A regression discontinuity study in South Africa

scientific article published on 28 November 2017

Treatment switches during pregnancy among HIV-positive women on antiretroviral therapy at conception

scientific article

Trends in Pretreatment HIV-1 Drug Resistance in Antiretroviral Therapy-naive Adults in South Africa, 2000-2016: A Pooled Sequence Analysis

article

Triple-class virologic failure in HIV-infected patients undergoing antiretroviral therapy for up to 10 years

scientific article published in March 2010

UK HIV drug resistance database: background and recent outputs

scientific article published in December 2007

Ultra-rapid, sensitive and specific digital diagnosis of HIV with a dual-channel SAW biosensor in a pilot clinical study

scientific article published on 17 August 2018

Universal amplification, next-generation sequencing, and assembly of HIV-1 genomes

scientific article

Universal test and treat and the HIV epidemic in rural South Africa: a phase 4, open-label, community cluster randomised trial

scientific article published on 30 November 2017

Universal test and treat is not associated with sub-optimal antiretroviral therapy adherence in rural South Africa: the ANRS 12249 TasP trial.

scientific article published in June 2018

Update of the Drug Resistance Mutations in HIV-1.

scientific article published on December 2008

Update of the Drug Resistance Mutations in HIV-1: 2005.

scientific article

Update of the drug resistance mutations in HIV-1: 2004.

scientific article

Update of the drug resistance mutations in HIV-1: 2007.

scientific article published on August 2007

Update of the drug resistance mutations in HIV-1: December 2009.

scientific article

Update of the drug resistance mutations in HIV-1: December 2010.

scientific article published on December 2010

Update of the drug resistance mutations in HIV-1: Fall 2005.

scientific article published in October 2005

Update of the drug resistance mutations in HIV-1: Fall 2006.

scientific article published in August 2006

Update of the drug resistance mutations in HIV-1: March 2013.

scientific article published in February 2013

Update of the drug resistance mutations in HIV-1: Spring 2008

scientific article published on 01 April 2008

Updated assessment of risks and benefits of dolutegravir versus efavirenz in new antiretroviral treatment initiators in sub-Saharan Africa: modelling to inform treatment guidelines

scientific article published on 05 February 2020

Use of Whole-Genome Sequencing in the Investigation of a Nosocomial Influenza Virus Outbreak

scholarly article by Catherine F Houlihan et al published 22 September 2018 in Journal of Infectious Diseases

Using nearly full-genome HIV sequence data improves phylogeny reconstruction in a simulated epidemic

scientific article

Using two on-going HIV studies to obtain clinical data from before, during and after pregnancy for HIV-positive women

scientific article

Viral rebound and emergence of drug resistance in the absence of viral load testing: a randomized comparison between zidovudine-lamivudine plus Nevirapine and zidovudine-lamivudine plus Abacavir

scientific article published on January 2010

Virological Outcomes of Second-line Protease Inhibitor-Based Treatment for Human Immunodeficiency Virus Type 1 in a High-Prevalence Rural South African Setting: A Competing-Risks Prospective Cohort Analysis

scientific article

Virological monitoring and resistance to first-line highly active antiretroviral therapy in adults infected with HIV-1 treated under WHO guidelines: a systematic review and meta-analysis

scientific article published on July 2009

Virological response to initial antiretroviral regimens containing abacavir or tenofovir.

scientific article published in September 2009

When and how to use maraviroc in HIV-infected patients

scientific article published in November 2009

Which nucleoside and nucleotide backbone combinations select for the K65R mutation in HIV-1 reverse transcriptase

scientific article published in April 2004

World Health Organization/HIVResNet Drug Resistance Laboratory Strategy.

scientific article published in January 2008

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