Results 51 to 60 of about 2,036 (163)
Bayesian phylodynamic inference with complex models
PLOS Computational Biology, 2018 AbstractPopulation genetic modeling can enhance Bayesian phylogenetic inference by providing a realistic prior on the distribution of branch lengths and times of common ancestry.The parameters of a population genetic model may also have intrinsic importance, and simultaneous estimation of a phylogeny and model parameters has enabled phylodynamic ...
Erik M. Volz, Igor Siveroni
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Frontiers in Microbiology, 2022 Despite the efforts invested in the eradication of bovine tuberculosis in Spain, herd prevalence has remained constant in the country during the last 15 years (~1.5–1.9%) due to a combination of epidemiological factors impairing disease control ...
Pilar Pozo +15 more
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Phylodynamic Inference for Structured Epidemiological Models
PLoS Computational Biology, 2014 Coalescent theory is routinely used to estimate past population dynamics and demographic parameters from genealogies. While early work in coalescent theory only considered simple demographic models, advances in theory have allowed for increasingly complex demographic scenarios to be considered.
Rasmussen, David A +2 more
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Frontiers in Microbiology, 2022 The HIV-1 epidemic in the Amazonas state, as in most of Brazil, is dominated by subtype B. The state, nonetheless, is singular for its significant co-circulation of the variants BCAR, which can mostly be found in the Caribbean region, and BPAN, a clade ...
Ighor Arantes +5 more
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Emerging Microbes and Infections, 2023 Following the global emergence of the SARS-CoV-2 Alpha variant of concern (VOC) in 2020, the Delta variant triggered another wave in 2021. The AY.69 lineage, a Delta VOC, was particularly prevalent in Republic of Korea (South Korea) from May 2021 to ...
Sangyi Lee +11 more
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Emerging Concepts of Data Integration in Pathogen Phylodynamics [PDF]
Systematic Biology, 2016 Phylodynamics has become an increasingly popular statistical framework to extract evolutionary and epidemiological information from pathogen genomes. By harnessing such information, epidemiologists aim to shed light on the spatio-temporal patterns of spread and to test hypotheses about the underlying interaction of evolutionary and ecological dynamics ...
Baele, Guy +3 more
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e3SIM: Epidemiological‐ecological‐evolutionary simulation framework for genomic epidemiology
Methods in Ecology and Evolution, EarlyView.Abstract Infectious disease dynamics result from the complex interplay of epidemiological, ecological and evolutionary (epi‐eco‐evo) processes. Accurately modelling these coupled processes is crucial for understanding pathogen spread and informing public health strategies.
Peiyu Xu +14 more
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iMetaOmics, Volume 3, Issue 1, March 2026.This study integrates two decades of surveillance with genomic and structural analyses to decipher how spike protein glycosylation haplotypes drive avian coronavirus evolution. We uncover how specific glycosylation patterns associate with receptor‐binding affinity, shape global transmission dynamics, and correlate with clinical outcomes.
Hao Zhang +21 more
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Viruses, 2019 Non-pandemic variants of the Human Immunodeficiency Virus Type 1 (HIV-1) subtype B accounts for a significant fraction of HIV infections in several Caribbean islands, Northeastern South American countries and the Northern Brazilian states of Roraima and ...
Ighor Arantes +4 more
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Quantifying the Phylodynamic Forces Driving Papillomavirus Evolution [PDF]
Molecular Biology and Evolution, 2011 The associations between pathogens and their hosts are complex and can result from a variety of evolutionary processes including codivergence, lateral transfer, or duplication. Papillomaviruses (PVs) are double-stranded DNA viruses ubiquitously present in mammals and are a suitable target for rigorous statistical tests of potential virus-host ...
Gottschling, M. +5 more
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