ArticleeLife2013
A genome-to-genome analysis of associations between human genetic variation, HIV-1 sequence diversity, and viral control.
Article in eLife, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 91 papers.
What it found
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Who cites it
91 citing papers in PubMed.
- Association Between Single-Nucleotide Polymorphisms in HLA Alleles and Human Immunodeficiency Virus Type 1 Viral Load in Demographically Diverse, Antiretroviral Therapy-Naive Participants From the Strategic Timing of AntiRetroviral Treatment Trial.The Journal of infectious diseases · 2019Trial
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- Trends, Gaps, and Challenges in Antiviral Resistance: A Bibliometric Analysis and Narrative Synthesis of Key Viruses, Resistance Mechanisms, and Drivers.BioMed research international · 2026Article
- BeyondFrontiers in genetics · 2026Review
- Addressing data management and analysis challenges in viral genomics: The Swiss HIV cohort study viral next generation sequencing database.PLOS digital health · 2025Article
- Using genome-wide associations and host-by-pathogen predictions to identify allelic interactions that control disease resistance.The plant genome · 2025Article
- The genetic architecture of HIV-1 virulence.Virus evolution · 2025Article
- Exceptional, naturally occurring HIV-1 control: Insight into a functional cure.Med (New York, N.Y.) · 2024Review
- Inference of Host-Pathogen Interaction Matrices from Genome-Wide Polymorphism Data.Molecular biology and evolution · 2024Article
- Genome-wide association study between SARS-CoV-2 single nucleotide polymorphisms and virus copies during infections.PLoS computational biology · 2024Article
- Toward Ecologically Relevant Genetics of Interactions Between Host Plants and Plant Growth-Promoting Bacteria.Advanced genetics (Hoboken, N.J.) · 2024Article
- Prediction of resistance, virulence, and host-by-pathogen interactions using dual-genome prediction models.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Article
- Using viral diversity to identify HIV-1 variants under HLA-dependent selection in a systematic viral genome-wide screen.PLoS pathogens · 2024Article
- Epistatic interaction between ERAP2 and HLA modulates HIV-1 adaptation and disease outcome in an Australian population.PLoS pathogens · 2024Article
- Joint host-pathogen genomic analysis identifies hepatitis B virus mutations associated with human NTCP and HLA class I variation.American journal of human genetics · 2024Article
- Disease resistance and infectivity of virus susceptible and resistant common carp strains.Scientific reports · 2024Article
- Molecular evolution in different subtypes of multifocal hepatocellular carcinoma.Hepatology international · 2023Article
- Review
- mbQTL: an R/Bioconductor package for microbial quantitative trait loci (QTL) estimation.Bioinformatics (Oxford, England) · 2023Article
31 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
29 authors.
Funding
Abstract
HIV-1 sequence diversity is affected by selection pressures arising from host genomic factors. Using paired human and viral data from 1071 individuals, we ran >3000 genome-wide scans, testing for associations between host DNA polymorphisms, HIV-1 sequence variation and plasma viral load (VL), while considering human and viral population structure. We observed significant human SNP associations to a total of 48 HIV-1 amino acid variants (p<2.4 × 10(-12)). All associated SNPs mapped to the HLA class I region. Clinical relevance of host and pathogen variation was assessed using VL results. We identified two critical advantages to the use of viral variation for identifying host factors: (1) association signals are much stronger for HIV-1 sequence variants than VL, reflecting the 'intermediate phenotype' nature of viral variation; (2) association testing can be run without any clinical data. The proposed genome-to-genome approach highlights sites of genomic conflict and is a strategy generally applicable to studies of host-pathogen interaction. DOI:http://dx.doi.org/10.7554/eLife.01123.001.
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