| BEAST 2: a software platform for Bayesian evolutionary analysis R Bouckaert, J Heled, D Kühnert, T Vaughan, CH Wu, D Xie, MA Suchard, ... PLoS Comput Biol 10 (4), e1003537, 2014 | 3832 | 2014 |
| 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 | 434 | 2019 |
| 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 | 295 | 2012 |
| The contrasting phylodynamics of human influenza B viruses D Vijaykrishna, EC Holmes, U Joseph, M Fourment, YCF Su, R Halpin, ... Elife 4, e05055, 2015 | 124 | 2015 |
| 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 | 91 | 2013 |
| 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 | 89 | 2013 |
| Efficient Bayesian inference under the structured coalescent TG Vaughan, D Kühnert, A Popinga, D Welch, AJ Drummond Bioinformatics 30 (16), 2272-2279, 2014 | 87 | 2014 |
| 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), 1-6, 2016 | 82 | 2016 |
| 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 | 79 | 2014 |
| Phylogenetic and epidemic modeling of rapidly evolving infectious diseases D Kühnert, CH Wu, AJ Drummond Infection, genetics and evolution 11 (8), 1825-1841, 2011 | 73 | 2011 |
| 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), 1-10, 2018 | 67 | 2018 |
| 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 | 64 | 2016 |
| 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 | 53 | 2015 |
| 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 | 51 | 2016 |
| 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 | 43 | 2018 |
| 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 | 43 | 2018 |
| 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 | 38 | 2015 |
| Taming the BEAST—A community teaching material resource for BEAST 2 J Barido-Sottani, V Bošková, LD Plessis, D Kühnert, C Magnus, V Mitov, ... Systematic biology 67 (1), 170-174, 2018 | 35 | 2018 |
| 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 | 32 | 2018 |
| 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 | 29 | 2015 |
Alexei J. DrummondProfessor of Computational Biology, University of AucklandVerified email at cs.auckland.ac.nz
