ArticleJournal of acquired immune deficiency syndromes (1999)2015
Phylogenetic Investigation of a Statewide HIV-1 Epidemic Reveals Ongoing and Active Transmission Networks Among Men Who Have Sex With Men.
Article in Journal of acquired immune deficiency syndromes (1999), 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers, 2 of them syntheses that pooled it.
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Who cites it
39 citing papers in PubMed, 2 syntheses or guidelines pooled it, 50 citations in OpenAlex.
- HIV Response Interventions that Integrate HIV Molecular Cluster and Social Network Analysis: A Systematic Review.AIDS and behavior · 2022Pooled it
- Defining HIV-1 transmission clusters based on sequence data.AIDS (London, England) · 2017Pooled it
- Genetic diversity and evolutionary analysis of HIV-1 among migration populations: a five-year cross-sectional molecular epidemiology study.Virus genes · 2026Article
- Newly Diagnosed Individuals in Molecular HIV-1 Clusters in Rhode Island Over 3 Decades.The Journal of infectious diseases · 2025Article
- The origin and dissemination of HIV-1 subtype B on Hainan Island, South China, 2007-2024.BMC infectious diseases · 2025Article
- Dynamics of clustering rates in the Rhode Island HIV-1 epidemic.AIDS (London, England) · 2025Article
- Syphilis as Re-Emerging Disease, Antibiotic Resistance, and Vulnerable Population: Global Systematic Review and Meta-Analysis.Pathogens (Basel, Switzerland) · 2022Review
- Impact of molecular sequence data completeness on HIV cluster detection and a network science approach to enhance detection.Scientific reports · 2022Article
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- Integrated molecular and affiliation network analysis: Core-periphery social clustering is associated with HIV transmission patterns.Social networks · 2022Article
- Statewide Longitudinal Trends in Transmitted HIV-1 Drug Resistance in Rhode Island, USA.Open forum infectious diseases · 2022Article
- Longitudinal typing of molecular HIV clusters in a statewide epidemic.AIDS (London, England) · 2021Article
- Integrating Phylogenetic Biomarker Data and Qualitative Approaches: An example of HIV Transmission Clusters as a Sampling Frame for Semistructured Interviews and Implications for the COVID-19 Era.Journal of mixed methods research · 2021Article
- Analysis of the Driving Factors of Active and Rapid Growth Clusters Among CRF07_BC-Infected Patients in a Developed Area in Eastern China.Open forum infectious diseases · 2021Article
- Methodological synthesis of Bayesian phylodynamics, HIV-TRACE, and GEE: HIV-1 transmission epidemiology in a racially/ethnically diverse Southern U.S. context.Scientific reports · 2021Article
- Empirical comparison of analytical approaches for identifying molecular HIV-1 clusters.Scientific reports · 2020Article
- Challenges in evaluating the use of viral sequence data to identify HIV transmission networks for public health.Statistical communications in infectious diseases · 2020Article
- Genetic clustering analysis for HIV infection among MSM in Nigeria: implications for intervention.AIDS (London, England) · 2020Observational
- Factors Associated With Human Immunodeficiency Virus Infections Linked in Genetic Clusters But Disconnected in Partner Tracing.Sexually transmitted diseases · 2020Article
Corrections and comments
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Authors and funding
7 authors at 3 institutions in 1 country.
Funding
Abstract
backgroundMolecular epidemiological evaluation of HIV-1 transmission networks can elucidate behavioral components of transmission that can be targets for intervention.
methodsWe combined phylogenetic and statistical approaches using pol sequences from patients diagnosed between 2004 and 2011 at a large HIV center in Rhode Island, following 75% of the state's HIV population. Phylogenetic trees were constructed using maximum likelihood, and putative transmission clusters were evaluated using latent class analyses to determine association of cluster size with underlying demographic/behavioral characteristics. A logistic growth model was used to assess intracluster dynamics over time and predict "active" clusters that were more likely to harbor undiagnosed infections.
resultsOf the 1166 HIV-1 subtype B sequences, 31% were distributed among 114 statistically supported, monophyletic clusters (range: 2-15 sequences/cluster). Sequences from men who have sex with men (MSM) formed 52% of clusters. Latent class analyses demonstrated that sequences from recently diagnosed (2008-2011) MSM with primary HIV infection (PHI) and other sexually transmitted infections (STIs) were more likely to form larger clusters (odds ratio: 1.62-11.25, P < 0.01). MSM in clusters were more likely to have anonymous partners and meet partners at sex clubs and pornographic stores. Four large clusters with 38 sequences (100% male, 89% MSM) had a high probability of harboring undiagnosed infections and included younger MSM with PHI and STIs.
conclusionsIn this first large-scale molecular epidemiological investigation of HIV-1 transmission in New England, sexual networks among recently diagnosed MSM with PHI and concomitant STIs contributed to the ongoing transmission. Characterization of transmission dynamics revealed actively growing clusters, which may be targets for intervention.
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