Results 41 to 50 of about 2,036 (163)
Recent advances in computational phylodynamics
Current Opinion in Virology, 2018 Time-stamped, trait-annotated phylogenetic trees built from virus genome data are increasingly used for outbreak investigation and monitoring ongoing epidemics. This routinely involves reconstructing the spatial and demographic processes from large data sets to help unveil the patterns and drivers of virus spread.
Baele, Guy +4 more
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Tuberculosis outbreak investigation using phylodynamic analysis
Epidemics, 2018 The fast evolution of pathogenic viruses has allowed for the development of phylodynamic approaches that extract information about the epidemiological characteristics of viral genomes. Thanks to advances in whole genome sequencing, they can be applied to slowly evolving bacterial pathogens like Mycobacterium tuberculosis.
Kühnert, Denise +7 more
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Microbiology Spectrum, 2022 Florida is considered an epicenter of HIV in the United States. The U.S. federal plan for Ending the HIV Epidemic (EHE) within 10 years prioritizes seven of Florida’s 67 counties for intervention. We applied molecular epidemiology methods to characterize
Shannan N. Rich +7 more
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Diverse Large HIV-1 Non-subtype B Clusters Are Spreading Among Men Who Have Sex With Men in Spain
Frontiers in Microbiology, 2019 In Western Europe, the HIV-1 epidemic among men who have sex with men (MSM) is dominated by subtype B. However, recently, other genetic forms have been reported to circulate in this population, as evidenced by their grouping in clusters predominantly ...
Elena Delgado +91 more
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Viruses, 2023 Brazil currently ranks second in absolute deaths by COVID-19, even though most of its population has completed the vaccination protocol. With the introduction of Omicron in late 2021, the number of COVID-19 cases soared once again in the country.
Alessandra P. Lamarca +42 more
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Frontiers in Microbiology, 2020 BackgroundEchovirus 30 (E-30) has been investigated and reported worldwide and is closely associated with several infectious diseases, including encephalitis; myocarditis; and hand, foot, and mouth disease.
Jianhua Chen +7 more
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Viruses, 2023 Bayesian space–time regression models are helpful tools to describe and predict the distribution of infectious disease outbreaks and to delineate high-risk areas for disease control.
Umanga Gunasekara +7 more
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Discovering the Phylodynamics of RNA Viruses
PLoS Computational Biology, 2009 1 Center for Infectious Disease Dynamics, Department of Biology, The Pennsylvania State University, Mueller Laboratory, University Park, Pennsylvania, United States of America, 2 Fogarty International Center, National Institutes of Health, Bethesda, Maryland, United States of America, 3 Department of Ecology and Evolutionary Biology and Woodrow Wilson ...
Edward C Holmes, Bryan T Grenfell
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ReMASTER: improved phylodynamic simulation for BEAST 2.7
Bioinformatics, 2023 Abstract Summary Phylodynamic models link phylogenetic trees to biologically-relevant parameters such as speciation and extinction rates (macroevolution), effective population sizes and migration rates (ecology and phylogeography), and transmission and removal/recovery rates (epidemiology) to ...
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Frontiers in Microbiology, 2022 Circulating recombinant forms (CRFs) are important components of the HIV-1 pandemic. Those derived from recombination between subtype B and subsubtype F1, with 18 reported, most of them of South American origin, are among the most diverse. In this study,
Javier E. Cañada-García +14 more
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