Early phylogenetic estimate of the effective reproduction number of SARSCoV2

A Lai, A Bergna, C Acciarri, M Galli… - Journal of medical …, 2020 - Wiley Online Library
… CoV-2 phylogeny obtained in the present study is in line with previous estimates and suggests
… November 2019, several weeks before the first cases were described. This was confirmed …

Early phylogenetic estimate of the effective reproduction number of 2019-nCoV

A Lai, A Bergna, C Acciarri, M Galli, G Zehender - medRxiv, 2020 - medrxiv.org
… -nCoV phylogeny obtained in the present study is in line with previous estimates and suggests
… November 2019, several weeks before the first cases were described. This was confirmed …

Estimating the basic reproductive number from viral sequence data

T Stadler, R Kouyos, V von Wyl, S Yerly… - Molecular biology …, 2012 - academic.oup.com
… are estimated independently and therefore enables for the first time the estimation of the basic
reproductive number of … Here, we develop a Bayesian method of phylogenetic analysis for …

The estimation of the basic reproduction number for infectious diseases

K Dietz - Statistical methods in medical research, 1993 - journals.sagepub.com
… basic reproduction numbers greater than one. Because the magnitude of R 0 allows one to
determine the amount of … from a population, it is crucial to estimate Ro for a given disease in a …

[HTML][HTML] Improved estimation of time-varying reproduction numbers at low case incidence and between epidemic waves

KV Parag - PLoS Computational Biology, 2021 - journals.plos.org
… This means we compute instantaneous reproduction number, R s , estimates that formally
… The second problem, which we call reverse-filtering, is the complement of the first. The …

[HTML][HTML] Phylogenetic and epidemic modeling of rapidly evolving infectious diseases

D Kühnert, CH Wu, AJ Drummond - Infection, genetics and evolution, 2011 - Elsevier
… the first tentative steps have been taken to reconcile these two theoretical approaches. We
survey the Bayesian phylogenetic … due to phylogenetic estimation error. Finally, in situations …

Adaptive estimation for epidemic renewal and phylogenetic skyline models

KV Parag, CA Donnelly - Systematic biology, 2020 - academic.oup.com
… Reliable estimates can provide key insights into the climatic … renewal model estimates the
effective reproduction number, R… We discuss the results of the first problem in the Appendix (…

[HTML][HTML] Estimate of the basic reproduction number for COVID-19: a systematic review and meta-analysis

Y Alimohamadi, M Taghdir… - Journal of Preventive …, 2020 - ncbi.nlm.nih.gov
… An accurate estimation of the basic reproduction number (R 0 ) of … and meta-analysis aimed
to estimate the pooled R 0 for … The name of the first author, country, year of the study, model …

Unifying phylogenetic birth–death models in epidemiology and macroevolution

A MacPherson, S Louca, A McLaughlin… - Systematic …, 2022 - academic.oup.com
estimate characteristic parameters of the SIR model, for example, the basic or effective
reproductive number… We do so by first deriving a likelihood for general single- and multitype BDS …

Quantifying transmission heterogeneity using both pathogen phylogenies and incidence time series

LM Li, NC Grassly, C Fraser - Molecular biology and evolution, 2017 - academic.oup.com
… We also estimated the basic reproductive number R 0 , time of the first infection T 0 , and
the probability of sampling an infectious individual in the incidence time series ρ at the same …