Methylation regulation of Antiviral host factors, Interferon Stimulated Genes (ISGs) and T-cell responses associated with natural HIV control

A minor population of macrophage-tropic HIV-1 variants is identified in recrudescing viremia following analytic treatment interruption

(2020) Viviane M. Andrade et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Integrated systems approach defines the antiviral pathways conferring protection by the RV144 HIV vaccine

(2019) Slim Fourati et al.   Nature Communications

The coronavirus macrodomain is required to prevent PARP-mediated inhibition of virus replication and enhancement of IFN expression

(2019) Matthew E. Grunewald et al.   PLoS Pathogens

Can we just kick-and-kill HIV: possible challenges posed by the epigenetically controlled interplay between HIV and host immunity

(2019) Marta Ruiz-Riol et al.   Immunotherapy

Transcriptome Sequencing of Peripheral Blood Mononuclear Cells from Elite Controller-Long Term Non Progressors

(2019) Francisco Díez-Fuertes et al.   Scientific Reports

Rapid HIV RNA rebound after antiretroviral treatment interruption in persons durably suppressed in Fiebig I acute HIV infection

(2018) Donn J. Colby et al.   NATURE MEDICINE

A High Frequency of HIV-Specific Circulating Follicular Helper T Cells Is Associated with Preserved Memory B Cell Responses in HIV Controllers

(2018) M. Claireaux et al.   mBio

Type I Interferon Responses by HIV-1 Infection: Association with Disease Progression and Control

(2018) Andrew Soper et al.   Frontiers in Immunology

USP18 (UBP43) Abrogates p21-Mediated Inhibition of HIV-1

(2018) Edmund Osei Kuffour et al.   JOURNAL OF VIROLOGY

Clinical epigenetics: seizing opportunities for translation

(2018) María Berdasco et al.   NATURE REVIEWS GENETICS

Machine learning selected smoking-associated DNA methylation signatures that predict HIV prognosis and mortality

(2018) Xinyu Zhang et al.   Clinical Epigenetics

Factors Leading to the Loss of Natural Elite Control of HIV-1 Infection

(2017) María Pernas et al.   JOURNAL OF VIROLOGY

Epigenome-wide differential DNA methylation between HIV-infected and uninfected individuals

(2016) Xinyu Zhang et al.   Epigenetics

Blocking type I interferon signaling enhances T cell recovery and reduces HIV-1 reservoirs

(2016) Liang Cheng et al.   JOURNAL OF CLINICAL INVESTIGATION

Complex Interplay between HIV-1 Capsid and MX2-Independent Alpha Interferon-Induced Antiviral Factors

(2016) Lorenzo Bulli et al.   JOURNAL OF VIROLOGY

Methylome-wide Analysis of Chronic HIV Infection Reveals Five-Year Increase in Biological Age and Epigenetic Targeting of HLA

(2016) Andrew M. Gross et al.   MOLECULAR CELL

Multiple functions of USP18

(2016) Nadine Honke et al.   Cell Death & Disease

Establishment and Replenishment of the Viral Reservoir in Perinatally HIV-1-infected Children Initiating Very Early Antiretroviral Therapy

(2015) Marta Martínez-Bonet et al.   CLINICAL INFECTIOUS DISEASES

HIV-1 Infection Accelerates Age According to the Epigenetic Clock

(2015) Steve Horvath et al.   JOURNAL OF INFECTIOUS DISEASES

PARP9-DTX3L ubiquitin ligase targets host histone H2BJ and viral 3C protease to enhance interferon signaling and control viral infection

(2015) Yong Zhang et al.   NATURE IMMUNOLOGY

Identification of potential HIV restriction factors by combining evolutionary genomic signatures with functional analyses

(2015) Paul J McLaren et al.   Retrovirology

Whole genome methylation array reveals the down-regulation of IGFBP6 and SATB2 by HIV-1

(2015) Yinfeng Zhang et al.   Scientific Reports

TCF1 Is Required for the T Follicular Helper Cell Response to Viral Infection

(2015) Tuoqi Wu et al.   Cell Reports

circlize implements and enhances circular visualization in R

(2014) Zuguang Gu et al.   BIOINFORMATICS

Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays

(2014) Martin J. Aryee et al.   BIOINFORMATICS

The WT hemochromatosis protein HFE inhibits CD8+T-lymphocyte activation

(2014) Alexandre Reuben et al.   EUROPEAN JOURNAL OF IMMUNOLOGY

MxB binds to the HIV-1 core and prevents the uncoating process of HIV-1

(2014) Thomas Fricke et al.   Retrovirology

Interaction of the phospholipid scramblase 1 with HIV-1 Tat results in the repression of Tat-dependent transcription

(2013) Shuichi Kusano et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

From reactivation of latent HIV-1 to elimination of the latent reservoir: The presence of multiple barriers to viral eradication

(2013) Liang Shan et al.   BIOESSAYS

Virological, Immune and Host genetics Markers in the Control of HIV Infection

(2013) Beatriz Mothe et al.   DISEASE MARKERS

Induction of IL-17 and nonclassical T-cell activation by HIV-Tat protein

(2013) T. P. Johnson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The sva package for removing batch effects and other unwanted variation in high-throughput experiments

(2012) Jeffrey T. Leek et al.   BIOINFORMATICS

DNA methylation arrays as surrogate measures of cell mixture distribution

(2012) Eugene Houseman et al.   BMC BIOINFORMATICS

clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

(2012) Guangchuang Yu et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

A cell-to-cell HIV transfer assay identifies humoral responses with broad neutralization activity

(2011) Sonsoles Sánchez-Palomino et al.   VACCINE

Correlating cellular and molecular signatures of mucosal immunity that distinguish HIV controllers from noncontrollers

(2010) P. Loke et al.   BLOOD

Epigenetic modifications and human disease

(2010) Anna Portela et al.   NATURE BIOTECHNOLOGY

Epigenetic Regulation of HIV-1 Latency by Cytosine Methylation

(2009) Steven E. Kauder et al.   PLoS Pathogens

CMA – a comprehensive Bioconductor package for supervised classification with high dimensional data

(2008) M Slawski et al.   BMC BIOINFORMATICS

Global Analysis of Host-Pathogen Interactions that Regulate Early-Stage HIV-1 Replication

(2008) Renate König et al.   CELL