Denise Kühnert
Denise Kühnert
Max Planck Institute for the Science of Human History
Verified email at shh.mpg.de
TitleCited byYear
BEAST 2: a software platform for Bayesian evolutionary analysis
R Bouckaert, J Heled, D Kühnert, T Vaughan, CH Wu, D Xie, MA Suchard, ...
PLoS computational biology 10 (4), e1003537, 2014
24252014
Birth–death skyline plot reveals temporal changes of epidemic spread in HIV and hepatitis C virus (HCV)
T Stadler, D Kühnert, S Bonhoeffer, AJ Drummond
Proceedings of the National Academy of Sciences, 2012
2012012
The contrasting phylodynamics of human influenza B viruses
D Vijaykrishna, EC Holmes, U Joseph, M Fourment, YCF Su, R Halpin, ...
Elife 4, e05055, 2015
752015
Simultaneous reconstruction of evolutionary history and epidemiological dynamics from viral sequences with the birth-death SIR model
D Kühnert, T Stadler, TG Vaughan, AJ Drummond
J. R. Soc. Interface 6 May 2014, http://rsif.royalsocietypublishing.org …, 2013
692013
Influenza A Virus Migration and Persistence in North American Wild Birds
J Bahl, S Krauss, D Kühnert, M Fourment, G Raven, et al
PLoS Pathogens 9 (8), e1003570, 2013
692013
Insights into the Early Epidemic Spread of Ebola in Sierra Leone Provided by Viral Sequence Data
T Stadler, D Kühnert, DA Rasmussen, L du Plessis
PLOS Currents Outbreaks, 2014
642014
Phylogenetic and epidemic modeling of rapidly evolving infectious diseases
D Kühnert, CH Wu, AJ Drummond
Infection, genetics and evolution 11 (8), 1825-1841, 2011
622011
Efficient Bayesian inference under the structured coalescent
TG Vaughan, D Kühnert, A Popinga, D Welch, AJ Drummond
Bioinformatics 30 (16), 2272-2279, 2014
612014
Origin of modern syphilis and emergence of a pandemic Treponema pallidum cluster
N Arora, VJ Schuenemann, G Jäger, A Peltzer, A Seitz, A Herbig, ...
Nature microbiology 2 (1), 16245, 2017
432017
Phylodynamics with migration: a computational framework to quantify population structure from genomic data
D Kühnert, T Stadler, TG Vaughan, AJ Drummond
Molecular biology and evolution 33 (8), 2102-2116, 2016
402016
Phylodynamics of enterovirus A71-associated hand, foot, and mouth disease in Viet Nam
JL Geoghegan, D Kühnert, RA Halpin, X Lin, A Simenauer, A Akopov, ...
Journal of virology 89 (17), 8871-8879, 2015
322015
Spatiotemporal dynamics of Puumala hantavirus associated with its rodent host, Myodes glareolus
V Weber de Melo, H Sheikh Ali, J Freise, D Kühnert, S Essbauer, ...
Evolutionary applications 8 (6), 545-559, 2015
252015
Phylogenetic Tools for Generalized HIV-1 Epidemics: Findings from the PANGEA-HIV Methods Comparison
O Ratmann, EB Hodcroft, M Pickles, A Cori, M Hall, S Lycett, C Colijn, ...
Mol Biol Evol, 2016
242016
Analysis of 3800-year-old Yersinia pestis genomes suggests Bronze Age origin for bubonic plague
MA Spyrou, RI Tukhbatova, CC Wang, AA Valtueña, AK Lankapalli, ...
Nature communications 9 (1), 2234, 2018
172018
Neolithic and medieval virus genomes reveal complex evolution of hepatitis B
B Krause-Kyora, J Susat, FM Key, D Kühnert, E Bosse, A Immel, C Rinne, ...
Elife 7, e36666, 2018
172018
How well can the exponential-growth coalescent approximate constant-rate birth–death population dynamics?
T Stadler, TG Vaughan, A Gavryushkin, S Guindon, D Kühnert, ...
Proceedings of the Royal Society B: Biological Sciences 282 (1806), 20150420, 2015
172015
Phylodynamic analysis of HIV sub-epidemics in Mochudi, Botswana
V Novitsky, D Kühnert, S Moyo, E Widenfelt, L Okui, M Essex
Epidemics 13, 44-55, 2015
122015
BEAST 2.5: An advanced software platform for Bayesian evolutionary analysis
R Bouckaert, TG Vaughan, J Barido-Sottani, S Duchêne, M Fourment, ...
PLoS computational biology 15 (4), e1006650, 2019
102019
Quantifying the fitness cost of HIV-1 drug resistance mutations through phylodynamics
D Kühnert, R Kouyos, G Shirreff, J Pečerska, AU Scherrer, J Böni, S Yerly, ...
PLoS pathogens 14 (2), e1006895, 2018
102018
The relationship between transmission time and clustering methods in Mycobacterium tuberculosis epidemiology
CJ Meehan, P Moris, TA Kohl, J Pečerska, S Akter, M Merker, C Utpatel, ...
EBioMedicine 37, 410-416, 2018
92018
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Articles 1–20