HIV Research and Treatment

This paper uses mathematical models to analyze N-803 treatment in SIV-infected macaques, showing immune regulation and viral escape contribute to viral rebound after treatment interruption.

The paper uses single molecule imaging to study HIV-1 promoter pausing and finds that stochastic pausing leads to transcriptional bursting in latent cells.

The paper analyzes HIV-1 subtype C gp120 sequence diversity across regions and predicts its impact on broadly neutralizing antibody sensitivity using machine learning.

SLAPNAP predicts in vitro neutralization resistance of HIV Envelope pseudoviruses to bnAb regimens using machine learning based on sequence features to aid in selecting effective prevention strategies.

This study shows chronic SSRI treatment can reverse HIV-1 protein-induced synaptodendritic damage in HIV-1 transgenic rats, though neurochemical effects were inconsistent.

This study shows that LM11A-31 treatment improves neurocognitive performance in FIV-infected cats without adverse effects.

This study shows that KAP1 represses HIV-1 gene expression in myeloid cells by interacting with Tat and CTIP2, contributing to HIV-1 latency.

The paper evaluates the Intact Proviral DNA Assay (IPDA) for HIV reservoir quantification, finding that HIV diversity leads to a 28% failure rate and underestimation of reservoir size.

This study shows that chronic morphine administration reduces SIV reservoirs in peripheral blood and lymph nodes but increases them in CNS microglia/macrophages in SIV-infected rhesus macaques.

This paper introduces a method to map HIV-1 neutralizing epitopes using Cys labeling, neutralization assays, and deep sequencing, validated against known structural epitopes.

The paper identifies large T-cell clones producing infectious HIV-1 virus as a source of non-suppressible viremia despite ART adherence and no drug resistance.

This study examines the effects of HIV and methamphetamine dependence on sustained attention and vigilance, finding that recent methamphetamine use and detectable viral loads are detrimental to these cognitive domains.

The paper identifies gliotoxin as a novel LRA that disrupts 7SK snRNP, releases P-TEFb, and reverses HIV-1 latency in CD4+ T cells.

The paper shows SOD2 is upregulated in SIV-infected macaque brains, primarily in astrocytes, and validates this finding in HIV datasets.

This study investigates how herpes zoster (HZ) infection affects cerebrospinal fluid (CSF) HIV-1 RNA levels in HIV-positive individuals, finding that CSF white blood cell counts correlate with HIV-1 RNA levels and contribute to CSF escape or discordance.

The paper tests if the open Env trimer conformation, as indicated by sensitivity to 447-52D, correlates with sensitivity to SERINC5 inhibition of HIV-1 infectivity, finding no strong correlation.

The paper shows that retrocopying generates new APOBEC3 antiviral proteins in primates, expanding their functional repertoire to counteract viral evolution.

The paper describes ultrasensitive ddPCR assays for detecting SIV in rhesus macaques, demonstrating higher sensitivity and tolerance to sample inhibition compared to existing methods.

The paper identifies alterations in redox and iron metabolism associated with HIV-1 latency development and suggests iron metabolism modulators as potential therapeutic tools.

This study uses single-cell RNA sequencing to identify immune cell exhaustion in HIV-infected individuals, revealing novel T cell subclusters and potential therapeutic targets.

The paper develops machine learning classifiers to predict HIV-1 resistance to 33 neutralizing antibodies with 96% accuracy using clinical isolates.

The paper identifies spatially clustered genes with multiple enhancers as frequent targets of HIV-1 integration in T cells.

SNAPPy is a Snakemake pipeline for scalable HIV-1 subtyping using phylogenetic pairing, capable of analyzing full-length genomes or partial regions and recognizing over 90 circulating recombinant forms.

The paper analyzes gene expression in wild Ugandan red colobus to show SIV infection does not cause chronic immune activation and identifies upregulation of CD101 as a potential tolerance mechanism.

The paper investigates how HIV's transcriptional circuit, which bypasses host regulatory checkpoints, is influenced by host phase fragility, affecting viral latency and reactivation.

This paper investigates the functional roles of mutable linker regions in HIV-1 Rev by testing truncation and substitution mutations, revealing their impact on protein stability and function.

This study assesses the prevalence of HIV-associated neurocognitive disorders among adults in Southern Ethiopia and identifies associated risk factors.

The paper tracks RRE sequence and functional changes in a single HIV-infected patient over six years, finding increased activity and structural changes over time.

This paper develops a peptidome-wide association study to identify HIV epitopes linked to viral load, revealing patient-specific epitope repertoires that explain HLA-related variation in HIV control.