Search filters

List of works by Zabrina L Brumme

A 21-base pair insertion/duplication at codon 69 of the HIV type 1 reverse transcriptase in a patient undergoing multiple nucleoside therapy

scientific article published in July 2007

A genome-to-genome analysis of associations between human genetic variation, HIV-1 sequence diversity, and viral control

scientific article published on 29 October 2013

A method for killer-cell immunoglobulin-like receptor (KIR) 3DL1/3DS1 genotyping using DNA recovered from frozen plasma

scientific article published on 21 March 2013

A mutation in the 3' region of the human immunodeficiency virus type 1 reverse transcriptase (Y318F) associated with nonnucleoside reverse transcriptase inhibitor resistance

scientific article published on July 2002

A robust and scalable TCR-based reporter cell assay to measure HIV-1 Nef-mediated T cell immune evasion

scientific article published on 25 August 2015

A strong association of human leukocyte antigen-associated Pol and Gag mutations with clinical parameters in HIV-1 subtype A/E infection

scientific article published on 20 November 2015

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

scientific article

Adaptation of HIV-1 to human leukocyte antigen class I

scientific article published on 25 February 2009

Afri-Can Forum 2 : Johannesburg, South Africa. 16-18 February 2015

Aminopeptidase substrate preference affects HIV epitope presentation and predicts immune escape patterns in HIV-infected individuals

scientific article published on 14 May 2012

An evaluation of phylogenetic methods for reconstructing transmitted HIV variants using longitudinal clonal HIV sequence data

scientific article

Anti-APOBEC3G activity of HIV-1 Vif protein is attenuated in elite controllers

scientific article

Antigen load and viral sequence diversification determine the functional profile of HIV-1-specific CD8+ T cells

scientific article (publication date: 6 May 2008)

Antiretroviral resistance among HIV-infected persons who have died in British Columbia, in the era of modern antiretroviral therapy

scientific article

Attenuation of multiple Nef functions in HIV-1 elite controllers

scientific article published on 7 January 2013

CCR5Δ32 and promoter polymorphisms are not correlated with initial virological or immunological treatment response

article

CD4-dependent characteristics of coreceptor use and HIV type 1 V3 sequence in a large population of therapy-naive individuals

scientific article published in February 2008

Challenges and Opportunities for T-Cell-Mediated Strategies to Eliminate HIV Reservoirs

scientific article

Changes in mitochondrial DNA as a marker of nucleoside toxicity in HIV-infected patients

scientific article published in March 2002

Characteristics and Outcomes of Initial Virologic Suppressors during Analytic Treatment Interruption in a Therapeutic HIV-1 gag Vaccine Trial ⬇️

scientific article published on March 30, 2012

Clinical and immunological impact of HIV envelope V3 sequence variation after starting initial triple antiretroviral therapy

scientific article

Consequences of HLA-B*13-Associated Escape Mutations on HIV-1 Replication and Nef Function

scientific article

Correction for Ojwach et al., "Pol-Driven Replicative Capacity Impacts Disease Progression in HIV-1 Subtype C Infection"

article

Correction: Evidence of Differential HLA Class I-Mediated Viral Evolution in Functional and Accessory/Regulatory Genes of HIV-1

article

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

Correlates of protective cellular immunity revealed by analysis of population-level immune escape pathways in HIV-1.

scientific article

Croton megalobotrys Müll Arg. and Vitex doniana (Sweet): Traditional medicinal plants in a three-step treatment regimen that inhibit in vitro replication of HIV-1.

scientific article published on 24 June 2016

Definition of the viral targets of protective HIV-1-specific T cell responses

scientific article published on 7 December 2011

Differences in the Selection Bottleneck between Modes of Sexual Transmission Influence the Genetic Composition of the HIV-1 Founder Virus

scientific article

Differential Ability of Primary HIV-1 Nef Isolates To Downregulate HIV-1 Entry Receptors

scientific article

Differential Vpu-mediated CD4 and tetherin downregulation function among major HIV-1 group M subtypes

scientific article published on 06 May 2020

Differential escape patterns within the dominant HLA-B*57:03-restricted HIV Gag epitope reflect distinct clade-specific functional constraints

scientific article published on 05 February 2014

Differential evolution of a CXCR4-using HIV-1 strain in CCR5wt/wt and CCR5∆32/∆32 hosts revealed by longitudinal deep sequencing and phylogenetic reconstruction.

scientific article

Distinct HIV-1 Escape Patterns Selected by Cytotoxic T Cells with Identical Epitope Specificity

scientific article

Dynamic range of Nef functions in chronic HIV-1 infection

scientific article published on 13 March 2013

Dynamic range of Nef-mediated evasion of HLA class II-restricted immune responses in early HIV-1 infection

scientific article

Early immune adaptation in HIV-1 revealed by population-level approaches

scientific article

Early selection in Gag by protective HLA alleles contributes to reduced HIV-1 replication capacity that may be largely compensated for in chronic infection

scientific article

Effects of Human Leukocyte Antigen Class I Genetic Parameters on Clinical Outcomes and Survival after Initiation of Highly Active Antiretroviral Therapy

article

Efficacious early antiviral activity of HIV Gag- and Pol-specific HLA-B 2705-restricted CD8+ T cells

scientific article (publication date: October 2010)

Epithelial adhesion molecules can inhibit HIV-1-specific CD8⁺ T-cell functions

scientific article

Erratum to: Lack of a significant impact of Gag-Protease-mediated HIV-1 replication capacity on clinical parameters in treatment-naive Japanese individuals

scientific article published on 30 November 2015

Evidence of differential HLA class I-mediated viral evolution in functional and accessory/regulatory genes of HIV-1

scientific article

Factors Associated With Viral Rebound in HIV-1-Infected Individuals Enrolled in a Therapeutic HIV-1 gag Vaccine Trial ⬇️

scientific article published on April 1, 2011

Frequent and variable cytotoxic-T-lymphocyte escape-associated fitness costs in the human immunodeficiency virus type 1 subtype B Gag proteins

scientific article published on 30 January 2013

GWATCH: a web platform for automated gene association discovery analysis

scientific article

Gag-protease-mediated replication capacity in HIV-1 subtype C chronic infection: associations with HLA type and clinical parameters

scientific article

Genetic Diversity, Compartmentalization, and Age of HIV Proviruses Persisting in CD4+ T Cell Subsets during Long-Term Combination Antiretroviral Therapy

scientific article published on 14 February 2020

Genetic characterization of human immunodeficiency virus type 1 in elite controllers: lack of gross genetic defects or common amino acid changes

scientific article published on 18 June 2008

Genotypic and Mechanistic Characterization of Subtype-specific HIV Adaptation to Host Cellular Immunity

article

Genotypic and functional impact of HIV-1 adaptation to its host population during the North American epidemic

scientific article

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 Database-Driven Assessment of HIV-1 Adaptation to the Immune Repertoires of Human Populations

scientific article

HIV Diversity and Genetic Compartmentalization in Blood and Testes during Suppressive Antiretroviral Therapy

scientific article published on 13 August 2019

HIV Subtype and Nef-Mediated Immune Evasion Function Correlate with Viral Reservoir Size in Early-Treated Individuals

scientific article published on 05 March 2019

HIV VprR77Q mutation does not influence clinical response of individuals initiating highly active antiretroviral therapy

scientific article published on July 2006

HIV evolution in response to HLA-restricted CTL selection pressures: a population-based perspective

scientific article

HIV therapy, hepatitis C virus infection, antibiotics and obesity, a mitochondria killer mix?

scientific article published in June 2006

HIV-1 Vpu Mediates HLA-C Downregulation

scientific article published on May 2016

HIV-1 adaptation to HLA: a window into virus-host immune interactions

scientific article

HIV-1 drug resistance: degree of underestimation by a cross-sectional versus a longitudinal testing approach

scientific article published on 16 March 2005

HIV-1 variants are archived throughout infection and persist in the reservoir

scientific article published on 03 June 2020

HLA class I sequence-based typing using DNA recovered from frozen plasma.

scientific article published on 11 May 2012

HLA-B57/B*5801 human immunodeficiency virus type 1 elite controllers select for rare gag variants associated with reduced viral replication capacity and strong cytotoxic T-lymphocyte [corrected] recognition

scientific article published on 30 December 2008

HLA-associated alterations in replication capacity of chimeric NL4-3 viruses carrying gag-protease from elite controllers of human immunodeficiency virus type 1.

scientific article published on 29 October 2008

HLA-associated immune escape pathways in HIV-1 subtype B Gag, Pol and Nef proteins

scientific article

HLA-associated viral mutations are common in human immunodeficiency virus type 1 elite controllers

scientific article published on 19 January 2009

HLA-associated viral polymorphism in chronically HIV-1-infected Japanese cohort: analysis of four-digit HLA allele level.

scientific article published on 13 September 2012

High Levels of Dual-Class Drug Resistance in HIV-Infected Children Failing First-Line Antiretroviral Therapy in Southern Ethiopia

scientific article published in February 2018

Host-specific adaptation of HIV-1 subtype B in the Japanese population

scientific article published on 12 February 2014

Human leukocyte antigen-specific polymorphisms in HIV-1 Gag and their association with viral load in chronic untreated infection

article

Identification of Novel HIV-1 Latency-Reversing Agents from a Library of Marine Natural Products

article

Immune screening identifies novel T cell targets encoded by antisense reading frames of HIV-1.

scientific article

Immune-mediated attenuation of HIV-1

scientific article published on August 2011

Immunogenicity of recurrent mutations in MYD88 and EZH2 in non-Hodgkin lymphomas.

scientific article published on 4 November 2015

Impact of HLA-B*81-associated mutations in HIV-1 Gag on viral replication capacity

scientific article published on 11 January 2012

Impact of HLA-driven HIV adaptation on virulence in populations of high HIV seroprevalence

scientific article published in December 2014

Impact of antiretroviral therapy duration and intensification on isolated shedding of HIV-1 RNA in semen

scientific article

Impact of select immunologic and virologic biomarkers on CD4 cell count decrease in patients with chronic HIV-1 subtype C infection: results from Sinikithemba Cohort, Durban, South Africa

scientific article published on September 2009

Impaired Nef function is associated with early control of HIV-1 viremia

scientific article published on 25 June 2014

Impaired replication capacity of acute/early viruses in persons who become HIV controllers

scientific article

Impairment of viral replication capacity by nef alleles from HIV elite controllers.

scientific article published on 3 October 2011

In vitro functional assessment of natural HIV-1 group M Vpu sequences using a universal priming approach

scientific article published on 16 November 2016

In vitro selection of clinically relevant bevirimat resistance mutations revealed by "deep" sequencing of serially passaged, quasispecies-containing recombinant HIV-1

scientific article

Increasingly successful highly active antiretroviral therapy delays the emergence of new HLA class I-associated escape mutations in HIV-1.

scientific article published on 28 March 2012

Influence of Gag-protease-mediated replication capacity on disease progression in individuals recently infected with HIV-1 subtype C.

scientific article

Influence of HLA-C expression level on HIV control

scientific article published on April 2013

Influence of polymorphisms within the CX3CR1 and MDR-1 genes on initial antiretroviral therapy response

article

Inhibition of NF-κB-dependent HIV-1 replication by the marine natural product bengamide A.

scientific article published on 21 February 2018

Insulin-like growth factor-1 protects ischemic murine myocardium from ischemia/reperfusion associated injury

scientific article

Intersubtype differences in the effect of a rare p24 gag mutation on HIV-1 replicative fitness

scientific article

Killer cell immunoglobulin-like receptor 3DL1 variation modifies HLA-B*57 protection against HIV-1.

scientific article published on 20 February 2018

Lack of a significant impact of Gag-Protease-mediated HIV-1 replication capacity on clinical parameters in treatment-naive Japanese individuals

scientific article

Lack of association between HLA class II alleles and in vitro replication capacities of recombinant viruses encoding HIV-1 subtype C Gag-protease from chronically infected individuals

scientific article published on 16 November 2011

Limited evidence for alterations in Gag-mediated HIV replication capacity over the course of the North American epidemic (1979-present).

scientific article published on 13 September 2012

Longitudinal within-host evolution of HIV Nef-mediated CD4, HLA and SERINC5 downregulation activity: a case study

scientific article published on 09 January 2020

Mapping the human T cell repertoire to recurrent driver mutations in MYD88 and EZH2 in lymphoma

scientific article published on 28 April 2017

Marked epitope- and allele-specific differences in rates of mutation in human immunodeficiency type 1 (HIV-1) Gag, Pol, and Nef cytotoxic T-lymphocyte epitopes in acute/early HIV-1 infection

scientific article published on 9 July 2008

Minor contribution of HLA class I-associated selective pressure to the variability of HIV-1 accessory protein Vpu.

scientific article published on 7 April 2012

Modest attenuation of HIV-1 Vpu alleles derived from elite controller plasma

scientific article published on 20 March 2015

Modest decreases in NNRTI susceptibility do not influence virological outcome in patients receiving initial NNRTI-containing triple therapy.

scientific article published in October 2003

Modulation of HIV reservoirs by host HLA: bridging the gap between vaccine and cure

scientific article published on 29 August 2012

Molecular and Clinical Epidemiology of CXCR4‐Using HIV‐1 in a Large Population of Antiretroviral‐Naive Individuals

article

Mother-to-Child HIV Transmission Bottleneck Selects for Consensus Virus with Lower Gag-Protease-Driven Replication Capacity

scientific article

Naturally-arising amino acid polymorphisms of HIV-1 Nef that differentially modulate downregulation of HLA-A and HLA-B molecules

article

Nef-mediated down-regulation of CD4 and HLA class I in HIV-1 subtype C infection: association with disease progression and influence of immune pressure

scientific article published on 3 September 2014

No association between GB virus-C viremia and virological or immunological failure after starting initial antiretroviral therapy

scientific article published in September 2002

No evidence for selection of HIV-1 with enhanced gag-protease or Nef function among breakthrough infections in the CAPRISA 004 tenofovir microbicide trial

scientific article

Novel Acylguanidine-Based Inhibitor of HIV-1.

scientific article published on 10 August 2016

Operationalizing the One Health approach: the global governance challenges

scientific article

P09-09. Impact of immune-driven sequence variation in HIV-1 subtype C Gag-Protease on viral fitness and disease progression

article

P09-19 LB. CTL escape mutations in gag epitopes restricted by protective HLA class I alleles cause substantial reductions in viral replication capacity

P09-20 LB. Ultra-deep sequencing of full-length HIV-1 genomes identifies rapid viral evolution during acute infection

article

Phenotypic susceptibilities to tenofovir in a large panel of clinically derived human immunodeficiency virus type 1 isolates.

scientific article published on April 2002

Phylogenetic analysis of population-based and deep sequencing data to identify coevolving sites in the nef gene of HIV-1.

scientific article

Phylogenetic approach to recover integration dates of latent HIV sequences within-host

article published in the Proceedings of the National Academy of Sciences of the United States of America

Phylogenetic dependency networks: inferring patterns of CTL escape and codon covariation in HIV-1 Gag.

scientific article

Pol-Driven Replicative Capacity Impacts Disease Progression in HIV-1 Subtype C Infection

scientific article published in October 2018

Population-Level Immune-Mediated Adaptation in HIV-1 Polymerase during the North American Epidemic

scientific article

Potential for immune-driven viral polymorphisms to compromise antiretroviral-based preexposure prophylaxis for prevention of HIV-1 infection

scientific article

Predictors of HIV drug-resistance mutations in a large antiretroviral-naive cohort initiating triple antiretroviral therapy

scientific article

Prevalence and Correlates of Pre-Treatment HIV Drug Resistance among HIV-Infected Children in Ethiopia

scientific article published on 19 September 2019

Prevalence and clinical implications of insertions in the HIV-1 p6Gag N-terminal region in drug-naive individuals initiating antiretroviral therapy.

scientific article published in April 2003

Progression to AIDS in South Africa is associated with both reverting and compensatory viral mutations

scientific article

Rapid HIV-1 Disease Progression in Individuals Infected with a Virus Adapted to Its Host Population

scientific article

Rare mutations at codon 103 of HIV-1 reverse transcriptase can confer resistance to non-nucleoside reverse transcriptase inhibitors

scientific article published in March 2005

Rates and Correlates of Short Term Virologic Response among Treatment-Naïve HIV-Infected Children Initiating Antiretroviral Therapy in Ethiopia: A Multi-Center Prospective Cohort Study

scientific article published on 24 September 2019

Reduced replication capacity of NL4-3 recombinant viruses encoding reverse transcriptase-integrase sequences from HIV-1 elite controllers

scientific article published on February 2011

Relative Resistance of HLA-B to Downregulation by Naturally Occurring HIV-1 Nef Sequences

scientific article

Resistance of Major Histocompatibility Complex Class B (MHC-B) to Nef-Mediated Downregulation Relative to that of MHC-A Is Conserved among Primate Lentiviruses and Influences Antiviral T Cell Responses in HIV-1-Infected Individuals

scientific article published on 18 October 2017

Screening of the Pan-African natural product library identifies ixoratannin A-2 and boldine as novel HIV-1 inhibitors

scientific article published on April 2015

Short communication. Association of the CCR5delta32 mutation with clinical response and >5-year survival following initiation of first triple antiretroviral regimen

article

Significant reductions in Gag-protease-mediated HIV-1 replication capacity during the course of the epidemic in Japan

scientific article published on 14 November 2012

Sociodemographic correlates of HIV drug resistance and access to drug resistance testing in British Columbia, Canada

scientific article published on 22 September 2017

Statistical resolution of ambiguous HLA typing data

scientific article

Structure of TCR and antigen complexes at an immunodominant CTL epitope in HIV-1 infection

scientific article

Suboptimal biological sampling as a probable cause of false-negative COVID-19 diagnostic test results

scientific article published on 08 May 2020

Subtype-Specific Differences in Gag-Protease-Driven Replication Capacity Are Consistent with Intersubtype Differences in HIV-1 Disease Progression

scientific article

Switching and emergence of CTL epitopes in HIV-1 infection

scientific article

T cell receptor clonotypes modulate the protective effect of human leukocyte antigen class I alleles in HIV-1 infection.

scientific article published on 13 September 2012

T-cell responses to sequentially emerging viral escape mutants shape long-term HIV-1 population dynamics

scientific article published on 28 December 2020

TCR clonotypes modulate the protective effect of HLA class I molecules in HIV-1 infection

scientific article published on 10 June 2012

The Croton megalobotrys Müll Arg. traditional medicine in HIV/AIDS management: Documentation of patient use, in vitro activation of latent HIV-1 provirus, and isolation of active phorbol esters

scientific article published on 29 September 2017

The HIV-1 latent reservoir is largely sensitive to circulating T cells

scientific article published on 06 October 2020

Toward Personalized Lymphoma Immunotherapy: Identification of Common Driver Mutations Recognized by Patient CD8+ T Cells

scientific article published on 02 December 2015

Tracking the culprit: HIV-1 evolution and immune selection revealed by single-genome amplification

scientific article published on June 2009

Transmission and long-term stability of compensated CD8 escape mutations

scientific article published on 17 December 2008

Transmitted/Founder HIV-1 Subtype C Viruses Show Distinctive Signature Patterns in Vif, Vpr, and Vpu That Are Under Subsequent Immune Pressure During Early Infection

scientific article published on 28 June 2016

Treatment interruption of highly active antiretroviral therapy in patients with nadir CD4 cell counts >200 cells/mm3.

scientific article

Uncommon pathways of immune escape attenuate HIV-1 integrase replication capacity

scientific article

Unique features of HLA-mediated HIV evolution in a Mexican cohort: a comparative study

scientific article published on 10 August 2009

Variation in HIV-1 Nef function within and among viral subtypes reveals genetically separable antagonism of SERINC3 and SERINC5

scientific article published on 14 September 2020

Viral adaptation to immune selection pressure by HLA class I-restricted CTL responses targeting epitopes in HIV frameshift sequences

scientific article

Weaker HLA Footprints on HIV in the Unique and Highly Genetically Admixed Host Population of Mexico

scientific article published in November 2017

Whole genome deep sequencing of HIV-1 reveals the impact of early minor variants upon immune recognition during acute infection

scientific article published on 8 March 2012

Widespread impact of HLA restriction on immune control and escape pathways of HIV-1

scientific article published on 29 February 2012

Paulina is supported by:

About Paulina

Help