ArticleJournal of acquired immune deficiency syndromes (1999)2018
Identifying Clusters of Recent and Rapid HIV Transmission Through Analysis of Molecular Surveillance Data.
Article in Journal of acquired immune deficiency syndromes (1999), 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 111 papers.
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Who cites it
111 citing papers in PubMed.
- Delineating the "who-where-how" of persistent HIV epidemics: a 23-year longitudinal genetic network, phylodynamic, and spatial analysis for precise intervention in rural China.Emerging microbes & infections · 2026Article
- Integrating haplotype-enhanced HIV surveillance with national databases improves the resolution of transmission networks, drug resistance, and risk assessment.Emerging microbes & infections · 2026Article
- Brief Report: National HIV Molecular Cluster Detection Supports Local Cluster Detection.Journal of acquired immune deficiency syndromes (1999) · 2026Article
- Recent HIV-1 infection and associated factors among newly diagnosed female sex workers in Ethiopia-2019 to 2022.AJOG global reports · 2026Article
- Men who have sex with men newly diagnosed with HIV-1 in Portugal (2023-2024): a comparative analysis of transmission clusters between migrants and non-migrants.Scientific reports · 2026Article
- Molecular transmission network reveals CRF08_BC-driven clusters of HIV-1 among low-education older adults linked to female sex workers in Taizhou, China.Frontiers in microbiology · 2026Article
- Phylogenetics and molecular evolution to understand and curb the HIV pandemic.Nature reviews. Microbiology · 2026Review
- Analysis of HIV-1 subtypes and drug resistance mutations in people who inject drugs in Aizawl and nearby districts of Mizoram, India.Virulence · 2025Article
- More evidence is needed to improve molecular HIV surveillance for cluster detection and response.Communications medicine · 2025Article
- A Comprehensive Approach to HIV Cluster Detection and Response: The Role of Partner Services.Sexually transmitted diseases · 2025Article
- An Enhanced Social Network Strategy to Increase the Uptake of HIV Services: Protocol for Type I Hybrid Implementation Study (Carolinas RESPOND).JMIR public health and surveillance · 2025Article
- HIV molecular network in Mexico City (2021-2022): Understanding transmission dynamics through the role of newly diagnosed cases.HIV medicine · 2025Article
- Achieving Greater Transparency Regarding Molecular HIV Surveillance: A Proposal to Move Beyond the Status Quo.Open forum infectious diseases · 2025Article
- Article
- Sequencing HIV Diagnostic Samples to Detect Genetic Clusters and Assess Sequence Coverage Gaps.Open forum infectious diseases · 2025Article
- Analysis of HIV transmission characteristics and intervention effects in Guangxi based on molecular networks.AIDS (London, England) · 2025Article
- Nationwide Implementation of HIV Molecular Cluster Detection by Centers for Disease Control and Prevention and State and Local Health Departments, United States.Emerging infectious diseases · 2025Article
- Transmission dynamics of the 2022 mpox epidemic in New York City.Nature medicine · 2025Article
- Impact of Disclosing to Patients the Use of Antiretroviral Resistance Testing Results for Molecular HIV Surveillance: A Randomized Experiment in 2 National Surveys.JMIR public health and surveillance · 2025Article
- Centering Youth Voice in the Adaptation of an mHealth Intervention for Young Adults With HIV in South Texas, United States: Human-Centered Design Approach.JMIR formative research · 2025Article
51 more citing papers are in PubMed but not listed here.
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Authors and funding
9 authors.
Funding
Abstract
backgroundDetecting recent and rapid spread of HIV can help prioritize prevention and early treatment for those at highest risk of transmission. HIV genetic sequence data can identify transmission clusters, but previous approaches have not distinguished clusters of recent, rapid transmission. We assessed an analytic approach to identify such clusters in the United States.
methodsWe analyzed 156,553 partial HIV-1 polymerase sequences reported to the National HIV Surveillance System and inferred transmission clusters using 2 genetic distance thresholds (0.5% and 1.5%) and 2 periods for diagnoses (all years and 2013-2015, ie, recent diagnoses). For rapidly growing clusters (with ≥5 diagnoses during 2015), molecular clock phylogenetic analysis estimated the time to most recent common ancestor for all divergence events within the cluster. Cluster transmission rates were estimated using these phylogenies.
resultsA distance threshold of 1.5% identified 103 rapidly growing clusters using all diagnoses and 73 using recent diagnoses; at 0.5%, 15 clusters were identified using all diagnoses and 13 using recent diagnoses. Molecular clock analysis estimated that the 13 clusters identified at 0.5% using recent diagnoses had been diversifying for a median of 4.7 years, compared with 6.5-13.2 years using other approaches. The 13 clusters at 0.5% had a transmission rate of 33/100 person-years, compared with previous national estimates of 4/100 person-years.
conclusionsOur approach identified clusters with transmission rates 8 times those of previous national estimates. This method can identify groups involved in rapid transmission and help programs effectively direct and prioritize limited public health resources.
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