Louis du Plessis

SIB Swiss Institute of Bioinformatics — Switzerland

Medicine · Health Sciences

44h-index25.2kcitations131works8.02yr avg
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Research Topics

SARS-CoV-2 and COVID-19 Research(48), COVID-19 epidemiological studies(32), Genomics and Phylogenetic Studies(21), Evolution and Genetic Dynamics(19), SARS-CoV-2 detection and testing(15)

Publications116 total

Zoonotic hepatitis E virus spreads through environmental routes in pig herds – A phylodynamic analysis
PLoS Pathogens·2025Open Access
TyCHE enables time-resolved lineage tracing of heterogeneously-evolving populations
2025Open Access
From clinics to sewers: leveraging environmental surveillance and whole genome sequencing to inform transmission of ESBL- <i>Escherichia coli</i> in Switzerland
2025· 1 citedOpen Access
Poultry farm density and proximity drive highly pathogenic avian influenza spread
Communications Biology·2025· 5 citedOpen Access
Multidisciplinary Tracking of Highly Pathogenic Avian Influenza A(H5N1) Outbreak in Griffon Vultures, Southern Europe, 2022
Emerging infectious diseases·2025· 4 citedOpen Access
Characterizing Co-Circulating Respiratory Virus Genomic Diversity in Switzerland with Hybrid-Capture Sequencing and Phylogenetic Reconstructions: Insights into the 2023/24 Season
2025· 1 citedOpen Access
Estimating epidemic dynamics with genomic and time series data
Journal of The Royal Society Interface·2025· 1 citedOpen Access
Parvovirus B19-associated pure red cell aplasia in the setting of HIV and competing health risks
BMJ Case Reports·2025· 1 cited
Highly pathogenic avian influenza management in high-density poultry farming areas
2025Open Access
Transmission lineage dynamics and the detection of viral importation in emerging epidemics
2025· 1 citedOpen Access
Wastewater-based sequencing of Respiratory Syncytial Virus enables tracking of lineages and identifying mutations at antigenic sites
2025· 1 citedOpen Access
Insights into Treponema pallidum genomics from modern and ancient genomes using a novel mapping strategy
BMC Biology·2025· 5 citedOpen Access
Disruption of seasonal influenza circulation and evolution during the 2009 H1N1 and COVID-19 pandemics in Southeastern Asia
Nature Communications·2025· 19 citedOpen Access
Genomic epidemiology of early SARS-CoV-2 transmission dynamics in Bangladesh
Virology Journal·2024Open Access
EpiFusion: Joint inference of the effective reproduction number by integrating phylodynamic and epidemiological modelling with particle filtering
PLoS Computational Biology·2024· 9 citedOpen Access
COVID-19 pandemic interventions reshaped the global dispersal of seasonal influenza viruses
Science·2024· 74 citedOpen Access
High-resolution epidemiological landscape from  ~290,000 SARS-CoV-2 genomes from Denmark
Nature Communications·2024· 5 citedOpen Access
Inferring enterovirus D68 transmission dynamics from the genomic data of two 2022 North American outbreaks
npj Viruses·2024· 5 citedOpen Access
Inferring Enterovirus D68 Transmission Dynamics from the Genomic Data of Two 2022 North American outbreaks
Research Square (Research Square)·2024Open Access
Genomic epidemiology of early SARS-CoV-2 transmission dynamics in Bangladesh
2024Open Access
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Frequent Co-authors

Oliver G. Pybus(32), Nuno R. Faria(18), Andrew Rambaut(17), Moritz U. G. Kraemer(15), Verity Hill(13), Nicholas J. Loman(12), John T. McCrone(11), Chieh‐Hsi Wu(9), Áine O’Toole(8), Rachel Colquhoun(8), Tanja Stadler(7), Bernardo Gutiérrez(7), Simon Dellicour(7), Denise Kühnert(6), Marc A. Suchard(6), Christopher Ruis(6), Julien Thézé(6), Philippe Lemey(6), Marta Giovanetti(5), Alexander E. Zarebski(5)