Large-Scale Phylogenomic Analysis Reveals the Complex Evolutionary History of Rabies Virus in Multiple Carnivore Hosts
Troupin, Cécile, Dacheux, Laurent, Tanguy, Marion, Sabeta, Claude, Blanc, Hervé, Bouchier, Christiane, Vignuzzi, Marco, Duchene, Sebastián, Holmes, Edward C, Bourhy, Hervé
Published in PLoS pathogens (15.12.2016)
Published in PLoS pathogens (15.12.2016)
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Journal Article
Marine turtle mitogenome phylogenetics and evolution
Duchene, Sebastián, Frey, Amy, Alfaro-Núñez, Alonzo, Dutton, Peter H., Thomas P. Gilbert, M., Morin, Phillip A.
Published in Molecular phylogenetics and evolution (01.10.2012)
Published in Molecular phylogenetics and evolution (01.10.2012)
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Journal Article
The molecular clock of Mycobacterium tuberculosis
Menardo, Fabrizio, Duchêne, Sebastian, Brites, Daniela, Gagneux, Sebastien
Published in PLoS pathogens (12.09.2019)
Published in PLoS pathogens (12.09.2019)
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Journal Article
Genomic epidemiology reveals transmission patterns and dynamics of SARS-CoV-2 in Aotearoa New Zealand
Geoghegan, Jemma L., Ren, Xiaoyun, Storey, Matthew, Hadfield, James, Jelley, Lauren, Jefferies, Sarah, Sherwood, Jill, Paine, Shevaun, Huang, Sue, Douglas, Jordan, Mendes, Fábio K., Sporle, Andrew, Baker, Michael G., Murdoch, David R., French, Nigel, Simpson, Colin R., Welch, David, Drummond, Alexei J., Holmes, Edward C., Duchêne, Sebastián, de Ligt, Joep
Published in Nature communications (11.12.2020)
Published in Nature communications (11.12.2020)
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Journal Article
Distinct evolutionary dynamics of horizontal gene transfer in drug resistant and virulent clones of Klebsiella pneumoniae
Wyres, Kelly L, Wick, Ryan R, Judd, Louise M, Froumine, Roni, Tokolyi, Alex, Gorrie, Claire L, Lam, Margaret M C, Duchêne, Sebastián, Jenney, Adam, Holt, Kathryn E
Published in PLoS genetics (15.04.2019)
Published in PLoS genetics (15.04.2019)
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Journal Article
Population genomics of hypervirulent Klebsiella pneumoniae clonal-group 23 reveals early emergence and rapid global dissemination
Lam, Margaret M. C., Wyres, Kelly L., Duchêne, Sebastian, Wick, Ryan R., Judd, Louise M., Gan, Yunn-Hwen, Hoh, Chu-Han, Archuleta, Sophia, Molton, James S., Kalimuddin, Shirin, Koh, Tse Hsien, Passet, Virginie, Brisse, Sylvain, Holt, Kathryn E.
Published in Nature communications (13.07.2018)
Published in Nature communications (13.07.2018)
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Journal Article
The impact of calibration and clock-model choice on molecular estimates of divergence times
Duchêne, Sebastián, Lanfear, Robert, Ho, Simon Y.W.
Published in Molecular phylogenetics and evolution (01.09.2014)
Published in Molecular phylogenetics and evolution (01.09.2014)
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Journal Article
Bayesian molecular dating: opening up the black box
Bromham, Lindell, Duchêne, Sebastián, Hua, Xia, Ritchie, Andrew M., Duchêne, David A., Ho, Simon Y. W.
Published in Biological reviews of the Cambridge Philosophical Society (01.05.2018)
Published in Biological reviews of the Cambridge Philosophical Society (01.05.2018)
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Journal Article
Time‐dependent estimates of molecular evolutionary rates: evidence and causes
Ho, Simon Y. W, Duchêne, Sebastián, Molak, Martyna, Shapiro, Beth
Published in Molecular ecology (01.12.2015)
Published in Molecular ecology (01.12.2015)
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Journal Article
Simulating and detecting autocorrelation of molecular evolutionary rates among lineages
Ho, Simon Y. W., Duchêne, Sebastián, Duchêne, David
Published in Molecular ecology resources (01.07.2015)
Published in Molecular ecology resources (01.07.2015)
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Journal Article
BEAST 2.5: An advanced software platform for Bayesian evolutionary analysis
Bouckaert, Remco, Vaughan, Timothy G, Barido-Sottani, Joëlle, Duchêne, Sebastián, Fourment, Mathieu, Gavryushkina, Alexandra, Heled, Joseph, Jones, Graham, Kühnert, Denise, De Maio, Nicola, Matschiner, Michael, Mendes, Fábio K, Müller, Nicola F, Ogilvie, Huw A, du Plessis, Louis, Popinga, Alex, Rambaut, Andrew, Rasmussen, David, Siveroni, Igor, Suchard, Marc A, Wu, Chieh-Hsi, Xie, Dong, Zhang, Chi, Stadler, Tanja, Drummond, Alexei J
Published in PLoS computational biology (08.04.2019)
Published in PLoS computational biology (08.04.2019)
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Journal Article
The Recovery, Interpretation and Use of Ancient Pathogen Genomes
Duchêne, Sebastián, Ho, Simon Y.W., Carmichael, Ann G., Holmes, Edward C., Poinar, Hendrik
Published in Current biology (05.10.2020)
Published in Current biology (05.10.2020)
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Journal Article
Dating the emergence of human pathogens
Ho, Simon Y W, Duchêne, Sebastián
Published in Science (American Association for the Advancement of Science) (19.06.2020)
Published in Science (American Association for the Advancement of Science) (19.06.2020)
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Journal Article
Analysis of Phylogenomic Tree Space Resolves Relationships Among Marsupial Families
Duchêne, David A., Bragg, Jason G., Duchêne, Sebastián, Neaves, Linda E., Potter, Sally, Moritz, Craig, Johnson, Rebecca N., Ho, Simon Y. W., Eldridge, Mark D. B.
Published in Systematic biology (01.05.2018)
Published in Systematic biology (01.05.2018)
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