ArticleScientific reports2019
Proteo-Transcriptomic Dynamics of Cellular Response to HIV-1 Infection.
Article in Scientific reports, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- Insulin resistance is associated with mammary mitochondrial dysfunction at the onset of human lactation.The Journal of clinical investigation · 2026Article
- Paracrine signals from HIV-1-infected immune cells reprogram cervical cancer pathways.iScience · 2026Article
- Comprehensive Transcriptome Annotation of Thousands of HIV-1 Genomes.bioRxiv : the preprint server for biology · 2025Article
- Single-cell analyses identify monocyte gene expression profiles that influence HIV-1 reservoir size in acutely treated cohorts.Nature communications · 2025Article
- Virus-host protein co-expression networks reveal temporal organization and strategies of viral infection.iScience · 2023Article
- BELMM: Bayesian model selection and random walk smoothing in time-series clustering.Bioinformatics (Oxford, England) · 2023Article
- Article
- Systems-level temporal immune-metabolic profile in Crimean-Congo hemorrhagic fever virus infection.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Biological Aging in People Living with HIV on Successful Antiretroviral Therapy: Do They Age Faster?Current HIV/AIDS reports · 2023Review
- Article
- Interactomics: Dozens of Viruses, Co-evolving With Humans, Including the Influenza A Virus, may Actively Distort Human Aging.Molecular biology and evolution · 2023Article
- The endoplasmic reticulum proteostasis network profoundly shapes the protein sequence space accessible to HIV envelope.PLoS biology · 2022Article
- New confinement index and new perspective for comparing countries - COVID-19.Computer methods and programs in biomedicine · 2021Article
- Translational adaptation of human viruses to the tissues they infect.Cell reports · 2021Article
- An integrated approach to identify bimodal genes associated with prognosis in câncer.Genetics and molecular biology · 2021Article
- Codon usage similarity between viral and some host genes suggests a codon-specific translational regulation.Heliyon · 2020Article
- Expansion of Single Cell Transcriptomics Data of SARS-CoV Infection in Human Bronchial Epithelial Cells to COVID-19.Biological procedures online · 2020Article
- Network-Based Analysis of OMICs Data to Understand the HIV-Host Interaction.Frontiers in microbiology · 2020Review
- Fully moderated t-statistic in linear modeling of mixed effects for differential expression analysis.BMC bioinformatics · 2019Article
- A bioinformatic analysis identifies circadian expression of splicing factors and time-dependent alternative splicing events in the HD-MY-Z cell line.Scientific reports · 2019Article
Corrections and comments
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Authors and funding
9 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Throughout the HIV-1 replication cycle, complex host-pathogen interactions take place in the infected cell, leading to the production of new virions. The virus modulates the host cellular machinery in order to support its life cycle, while counteracting intracellular defense mechanisms. We investigated the dynamic host response to HIV-1 infection by systematically measuring transcriptomic, proteomic, and phosphoproteomic expression changes in infected and uninfected SupT1 CD4+ T cells at five time points of the viral replication process. By means of a Gaussian mixed-effects model implemented in the new R/Bioconductor package TMixClust, we clustered host genes based on their temporal expression patterns. We identified a proteo-transcriptomic gene expression signature of 388 host genes specific for HIV-1 replication. Comprehensive functional analyses of these genes confirmed the previously described roles of some of the genes and revealed novel key virus-host interactions affecting multiple molecular processes within the host cell, including signal transduction, metabolism, cell cycle, and immune system. The results of our analysis are accessible through a freely available, dedicated and user-friendly R/Shiny application, called PEACHi2.0. This resource constitutes a catalogue of dynamic host responses to HIV-1 infection that provides a basis for a more comprehensive understanding of virus-host interactions.
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