Publications of Denise Kühnert

Journal Article (26)

21.
Journal Article
Bouckaert, R.; Vaughan, T. G.; Barido-Sottani, J.; Duchêne, S.; Fourment, M.; Gavryushkina, A.; Heled, J.; Jones, G.; Kühnert, D.; De Maio, N. et al.; Matschiner, M.; Mendes, F. K.; Müller, N. F.; Ogilvie, H. A.; du Plessis, L.; Popinga, A.; Rambaut, A.; Rasmussen, D.; Siveroni, I.; Suchard, M. A.; Wu, C.-H.; Xie, D.; Zhang, C.; Stadler, T.; Drummond, A. J.: BEAST 2.5: an advanced software platform for Bayesian evolutionary analysis. PLoS Computational Biology 15 (4), e1006650 (2019)
22.
Journal Article
Dengler Haunreiter, V.; Boumasmoud, M.; Häffner, N.; Wipfli, D.; Leimer, N.; Rachmühl, C.; Kühnert, D.; Achermann, Y.; Zbinden, R.; Benussi, S. et al.; Vulin, C.; Zinkernagel, A. S.: In-host evolution of Staphylococcus epidermidis in a pacemaker-associated endocarditis resulting in increased antibiotic tolerance. Nature Communications 10, 1149 (2019)
23.
Journal Article
Kühnert, D.; Coscolla, M.; Brites, D.; Stucki, D.; Metcalfe, J.; Fenner, L.; Gagneux, S.; Stadler, T.: Tuberculosis outbreak investigation using phylodynamic analysis. Epidemics 25, pp. 47 - 53 (2018)
24.
Journal Article
Meehan, C. J.; Moris, P.; Kohl, T. A.; Pečerska, J.; Akter, S.; Merker, M.; Utpatel, C.; Beckert, P.; Gehre, F.; Lempens, P. et al.; Stadler, T.; Kaswa, M. K.; Kühnert, D.; Niemann, S.; de Jong; C., B.: The relationship between transmission time and clustering methods in Mycobacterium tuberculosis epidemiology. EBioMedicine 37, pp. 410 - 416 (2018)
25.
Journal Article
Spyrou, M. A.; Tukhbatova, R. I.; Wang, C.-C.; Andrades Valtueña, A.; Lankapalli, A. K.; Kondrashin, V. V.; Tsybin, V. A.; Khokhlov, A.; Kühnert, D.; Herbig, A. et al.; Bos, K. I.; Krause, J.: Analysis of 3800-year-old Yersinia pestis genomes suggests Bronze Age origin for bubonic plague. Nature Communications 9, 2234 (2018)
26.
Journal Article
Krause-Kyora, B.; Susat, J.; Key, F. M.; Kühnert, D.; Bosse, E.; Immel, A.; Rinne, C.; Kornell, S.-C.; Yepes, D.; Franzenburg, S. et al.; Heyne, H. O.; Meier, T.; Lösch, S.; Meller, H.; Friederich, S.; Nicklisch, N.; Alt, K. W.; Schreiber, S.; Tholey, A.; Herbig, A.; Nebel, A.; Krause, J.: Neolithic and medieval virus genomes reveal complex evolution of Hepatitis B. eLife 7, e36666 (2018)

Book Chapter (1)

27.
Book Chapter
Lamkiewicz, K.; Gomez, L. R. E.; Kühnert, D.; Marz , M.: Genome structure, life cycle, and taxonomy of Coronaviruses and the evolution of SARS-CoV-2. In: Viral fitness and evolution: population dynamics and adaptive mechanisms, 9, 1 Ed., pp. 305 - 339 (Eds. Domingo, E.; Schuster, P.; Elena, S. F.; Perales, C.). Springer, Cham (2023)

Other (2)

28.
Other
Hufsky, F.; Abecasis, A.; Agudelo-Romero, P.; Bletsa, M.; Brown, K.; Claus, C.; Deinhardt-Emmer, S.; Deng, L.; Friedel, C. C.; Gismondi, M. I. et al.; Kostaki, E. G.; Kühnert, D.; Kulkarni-Kale, U.; Metzner, K. J.; Meyer, I. M.; Miozzi, L.; Nishimura, L.; Paraskevopoulou, S.; Pérez-Cataluña, A.; Rahlff, J.; Thomson, E.; Tumescheit, C.; van der Hoek, L.; Van Espen, L.; Vandamme, A.-M.; Zaheri, M.; Zuckerman, N.; Marz, M.: Women in the European Virus Bioinformatics Center, Viruses 14, (2022)
29.
Other
Severinov, D.; Yi, B.; Dalpke, A.; Rost, F.; Winkler, S.; Beil, J.; Reinhardt, S.; Klemroth, S.; Mehnert, G.; Hartkopf, F. et al.; Hölzer, M.; Kühnert, D.; German COVID-19 OMICS Initiative (DeCOI); Poetsch, A.: Potential novel SARS-CoV-2 variant of interest from lineage AP.1 with N501Y and additional spike mutations identified in Saxony, Germany, Virological, (2021)

Preprint (1)

30.
Preprint
Brandt, C.; Spott, R.; Hölzer, M.; Kühnert, D.; Fuchs, S.; Lohde, M.; Marquet, M.; Viehweger, A.; Rimek, D.; Pletz, M. W.: Molecular epidemiology of SARS-CoV-2: a regional to global perspective. (2021)
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