Publications by authors named "Richard Neher"

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Molecular epidemiology of respiratory syncytial virus in Switzerland 2019-2024 from nucleic acid testing and whole-genome sequencing.
Alexander Kuznetsov, Rainer Gosert, Ulrich Heininger, Nina Khanna, Sarah Tschudin-Sutter, Richard A Neher

Swiss Med Wkly· December 2025

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A systematic nomenclature for mpox viruses causing outbreaks with sustained human-to-human transmission.
Christopher Ruis, Eddy Lusamaki, Aine O'Toole, James R Otieno, Rachel Colquhoun, Richard Neher

Nat Med· September 2025

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Conference report: The second Bacterial Genome Sequencing Pan-European Network conference.
Kuangyi Charles Wei, Srinithi Purushothaman, Francesca Azzato, Kate S Baker, Kira Waagner Birkeland, Richard A Neher

Microbes Infect· August 2025

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Development of avian influenza A(H5) virus datasets for Nextclade enables rapid and accurate clade assignment.
Jordan T Ort, Samuel S Shepard, Sonja A Zolnoski, Tommy T-Y Lam, C Todd Davis, Richard A Neher

Virus Evol· August 2025

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The mutation rate of SARS-CoV-2 is highly variable between sites and is influenced by sequence context, genomic region, and RNA structure.
Hugh K Haddox, Georg Angehrn, Luca Sesta, Chris Jennings-Shaffer, Seth D Temple, Richard A Neher

Nucleic Acids Res· June 2025

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The consequences of SARS-CoV-2 within-host persistence.
Alex Sigal, Richard A Neher, Richard J Lessells

Nat Rev Microbiol· May 2025

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Lost in the woods: shifting habitats can lead phylogeography astray.
Richard A Neher

Virus Evol· May 2025

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Estimating Re and overdispersion in secondary cases from the size of identical sequence clusters of SARS-CoV-2.
Emma B Hodcroft, Martin S Wohlfender, Richard A Neher, Julien Riou, Christian L Althaus

PLoS Comput Biol· April 2025

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Development of avian influenza A(H5) virus datasets for Nextclade enables rapid and accurate clade assignment.
Jordan T Ort, Sonja A Zolnoski, Tommy T-Y Lam, Richard Neher, Louise H Moncla

bioRxiv· February 2025

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Quantifying the Evolutionary Dynamics of Structure and Content in Closely Related E. coli Genomes.
Marco Molari, Liam P Shaw, Richard A Neher

Mol Biol Evol· January 2025

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The mutation rate of SARS-CoV-2 is highly variable between sites and is influenced by sequence context, genomic region, and RNA structure.
Hugh K Haddox, Georg Angehrn, Luca Sesta, Chris Jennings-Shaffer, Seth D Temple, Richard A Neher

bioRxiv· January 2025

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Eco-evolutionary dynamics of adapting pathogens and host immunity.
Pierre Barrat-Charlaix, Richard A Neher

Elife· December 2024

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Early unrecognised SARS-CoV-2 introductions shaped the first pandemic wave, Sweden, 2020.
Robert Dyrdak, Emma B Hodcroft, Sandra Broddesson, Malin Grabbe, Hildur Franklin, Richard A Neher

Euro Surveill· October 2024

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Standardized Phylogenetic Classification of Human Respiratory Syncytial Virus below the Subgroup Level.
Stephanie Goya, Christopher Ruis, Richard A Neher, Adam Meijer, Ammar Aziz

Emerg Infect Dis· August 2024

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Conference report: the first bacterial genome sequencing pan-European network conference.
Zoja Germuskova, Elisa Sosa, Amaya Campillay Lagos, Hege Vangstein Aamot, Mathew A Beale, Richard A Neher

Microbes Infect· August 2024

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How much should we sequence? An analysis of the Swiss SARS-CoV-2 surveillance effort.
Fanny Wegner, Blanca Cabrera-Gil, Araud Tanguy, Christiane Beckmann, Niko Beerenwinkel, Richard Neher

Microbiol Spectr· May 2024

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Revitalizing antibiotic discovery and development through in vitro modelling of in-patient conditions.
Julie Sollier, Marek Basler, Petr Broz, Petra S Dittrich, Knut Drescher, Richard A Neher

Nat Microbiol· January 2024

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Evolution and neutralization escape of the SARS-CoV-2 BA.2.86 subvariant.
Khadija Khan, Gila Lustig, Cornelius Römer, Kajal Reedoy, Zesuliwe Jule, Richard A Neher

Nat Commun· December 2023

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Visualizing and quantifying structural diversity around mobile resistance genes.
Liam P Shaw, Richard A Neher

Microb Genom· December 2023

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SARS-CoV-2 infection in immunosuppression evolves sub-lineages which independently accumulate neutralization escape mutations.
Gila Lustig, Yashica Ganga, Hylton E Rodel, Houriiyah Tegally, Afrah Khairallah, Richard A Neher

Virus Evol· December 2023

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APOBEC3 deaminase editing in mpox virus as evidence for sustained human transmission since at least 2016.
Áine O'Toole, Richard A Neher, Nnaemeka Ndodo, Vitor Borges, Ben Gannon

Science· November 2023

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Viral genetic clustering and transmission dynamics of the 2022 mpox outbreak in Portugal.
Vítor Borges, Mariana Perez Duque, João Vieira Martins, Paula Vasconcelos, Rita Ferreira, Richard A Neher

Nat Med· October 2023

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Fitness effects of mutations to SARS-CoV-2 proteins.
Jesse D Bloom, Richard A Neher

Virus Evol· September 2023

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Recommendations on data sharing in HIV drug resistance research.
Seth C Inzaule, Mark J Siedner, Susan J Little, Santiago Avila-Rios, Alisen Ayitewala, Richard A Neher

PLoS Med· September 2023

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Contributions of adaptation and purifying selection to SARS-CoV-2 evolution.
Richard A Neher

Virus Evol· December 2022

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