ArticleJournal of virology2012
Cytotoxic T-lymphocyte escape mutations identified by HLA association favor those which escape and revert rapidly.
Article in Journal of virology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
14 citing papers in PubMed, 21 citations in OpenAlex.
- SARS-CoV-2 spike L452R variant evades cellular immunity and increases infectivity.Cell host & microbe · 2021Article
- HIV-1 p24Gag adaptation to modern and archaic HLA-allele frequency differences in ethnic groups contributes to viral subtype diversification.Virus evolution · 2020Article
- Linked within-host and between-host models and data for infectious diseases: a systematic review.PeerJ · 2019Article
- Modeling the immune response to HIV infection.Current opinion in systems biology · 2018Article
- Next-generation sequencing analyses of the emergence and maintenance of mutations in CTL epitopes in HIV controllers with differential viremia control.Retrovirology · 2018Article
- Neutral Theory and Rapidly Evolving Viral Pathogens.Molecular biology and evolution · 2018Article
- APOBEC3G Regulation of the Evolutionary Race Between Adaptive Immunity and Viral Immune Escape Is Deeply Imprinted in the HIV Genome.Frontiers in immunology · 2018Article
- Interaction of the Host and Viral Genome and Their Influence on HIV Disease.Frontiers in genetics · 2018Review
- Population-Level Immune-Mediated Adaptation in HIV-1 Polymerase during the North American Epidemic.Journal of virology · 2016Observational
- Global Database-Driven Assessment of HIV-1 Adaptation to the Immune Repertoires of Human Populations.Journal of virology · 2015Article
- Fitness-Balanced Escape Determines Resolution of Dynamic Founder Virus Escape Processes in HIV-1 Infection.Journal of virology · 2015Article
- Structured observations reveal slow HIV-1 CTL escape.PLoS genetics · 2015Article
- Early immune adaptation in HIV-1 revealed by population-level approaches.Retrovirology · 2014Article
- Genotypic and functional impact of HIV-1 adaptation to its host population during the North American epidemic.PLoS genetics · 2014Article
Corrections and comments
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Authors and funding
6 authors at 1 institution in 1 country.
Funding
Abstract
Identifying human immunodeficiency virus (HIV) immune escape mutations has implications for understanding the impact of host immunity on pathogen evolution and guiding the choice of vaccine antigens. One means of identifying cytotoxic-T-lymphocyte (CTL) escape mutations is to search for statistical associations between mutations and host human leukocyte antigen (HLA) class I alleles at the population level. The impact of evolutionary rates on the strength of such associations is not well defined. Here, we address this topic using a mathematical model of within-host evolution and between-host transmission of CTL escape mutants that predicts the prevalence of escape mutants at the population level. We ask how the rates at which an escape mutation emerges in a host who bears the restricting HLA and reverts when transmitted to a host who does not bear the HLA affect the strength of an association. We consider the impact of these factors when using a standard statistical method to test for an association and when using an adaptation of that method that corrects for phylogenetic relationships. We show that with both methods, the average sample size required to identify an escape mutation is smaller if the mutation escapes and reverts quickly. Thus, escape mutations identified as HLA associated systematically favor those that escape and revert rapidly. We also present expressions that can be used to infer escape and reversion rates from cross-sectional escape prevalence data.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.