1.
A Mechanistic Evolutionary Model Explains the Time-Dependent Pattern of Substitution Rates in Viruses
Number of pages: 21Posted: 12 Mar 2021
Mahan Ghafari, Peter Simmonds, Oliver Pybus and Aris Katzourakis
University of Oxford - Department of Zoology, University of Oxford - Nuffield Department of Medicine, University of Oxford - Department of Zoology and University of Oxford - Department of Zoology
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2.
Lessons in Developing a Full-Genome Next-Generation Sequencing Pipeline for Molecular Epidemiology of Hcv
Number of pages: 33Posted: 29 Nov 2022
Kasper Thorhauge Christensen, Florian Pierard, Yoeri Schrooten, David Bonsall, Rory Bowden, Peter Simmonds, Tim Dierckx, Frederik Nevens, Eric Van Wijngaerden, Geert Robaeys, Eric Florence, Anne-Mieke Vandamme, Lize Cuypers and Kristel Van Laethem
KU Leuven, KU Leuven, KU Leuven, University of Oxford - Big Data Institute, University of Oxford, University of Oxford - Nuffield Department of Medicine, KU Leuven, Hasselt University, KU Leuven, Hasselt University, University of Antwerp - Department of Clinical Sciences, KU Leuven, KU Leuven and KU Leuven
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3.
Fatal COVID-19 Outcomes are Associated with an Antibody Response Targeting Epitopes Shared with Endemic Coronaviruses
Number of pages: 32Posted: 02 Jun 2021
Anna L. McNaughton, Robert S. Paton, Matthew Edmans, Jonathan Youngs, Judith Wellens, Prabhjeet Phalora, Alex Fyfe, Sandra Belij-Rammerstorfer, Jai S. Bolton, Jonathan Ball, George Carnell, Wanwisa Dejnirattisai, Christina Dold, David W. Eyre, Philip Hopkins, Alison Howarth, Kreepa Kooblall, Hannah Klim, Susannah Leaver, Lian Lee, Cesar Lopez-Camacho, Sheila Lumley, Derek Macallan, Alexander J. Mentzer, Nicholas Provine, Jeremy Ratcliff, Jose Slon-Campos, Donal Skelly, Donal Skelly, Lucas Stolle, Piyada Supasa, Nigel Temperton, Chris Walker, Beibei Wang, Duncan Wyncoll, OPTIC consortium, SNBTS consortium, Peter Simmonds, Teresa Lambe, J. Kenneth Baillie, Malcolm Semple, Peter Openshaw, ISARIC4C Investigators, Uri Obolski, Marc Turner, Miles W. Carroll, Juthathip Mongkolspaya, Gavin R. Screaton, Stephen H. Kennedy, Lisa Jarvis, Eleanor Barnes, Susanna Dunachie, José Lourenço, Philippa Matthews, Tihana Bicanic, Paul Klenerman, Sunetra Gupta and Craig P. Thompson
University of Oxford, University of Oxford, University of Oxford, St. George’s University of London - Institute of Infection & Immunity, University of Oxford, University of Oxford, University of Oxford - Peter Medawar Building for Pathogen Research, University of Oxford - The Jenner Institute, University of Oxford, St. George's University - Intensive Care Medicine, University of Cambridge, University of Oxford - Wellcome Centre for Human Genetics, University of Oxford - Oxford Vaccine Group, University of Oxford, Centre for Human & Applied Physiological Sciences, School of Basic & Medical Biosciences, Faculty of Life Sciences & Medicine, King's College, London, University of Oxford, University of Oxford, University of Oxford, St. George's University - General Intensive Care, University of Oxford, University of Oxford - Wellcome Centre for Human Genetics, University of Oxford - Nuffield Department of Medicine, St George's, University of London, University of Oxford - Wellcome Centre for Human Genetics, University of Oxford, University of Oxford, University of Oxford - Wellcome Centre for Human Genetics, Oxford University Hospitals NHS Foundation TrustUniversity of Oxford - Nuffield Department of Clinical Neurosciences, University of Oxford, University of Oxford - Wellcome Centre for Human Genetics, University of Kent - Viral Pseudotype Unit, Meso-‐Scale Diagnostics, University of Oxford - Wellcome Centre for Human Genetics, Guy's and St Thomas' NHS Foundation Trust - Intensive Care Medicine, Independent, Independent, University of Oxford - Nuffield Department of Medicine, University of Oxford - The Jenner Institute, University of Edinburgh - Roslin Institute, University of Liverpool - Health Protection Research Unit in Emerging and Zoonotic Infections, Imperial College London - National Heart and Lung Institute (NHLI), Independent, Tel Aviv University, Leidos Inc., University of Oxford - Wellcome Centre for Human Genetics, University of Oxford - Chinese Academy of Medical Science Oxford Institute (COI), University of Oxford - Chinese Academy of Medical Science Oxford Institute (COI), University of Oxford, affiliation not provided to SSRN, Oxford University Hospitals NHS Foundation Trust, Mahidol University - Mahidol-Oxford Tropical Medicine Research Unit, University of Oxford - Department of Zoology, University of Oxford - Peter Medawar Building for Pathogen Research, St. George’s University of London - Institute of Infection & Immunity, University of Oxford - Peter Medawar Building for Pathogen Research, University of Oxford - Department of Zoology and University of Oxford - Peter Medawar Building for Pathogen Research
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Citation 4
4.
A Vast World of Viroid-Like Circular RNAs Revealed by Mining Metatranscriptomes
Number of pages: 38Posted: 27 Jul 2022
Benjamin D. Lee, Uri Neri, Simon Roux, Yuri I. Wolf, Antonio Pedro Camargo, Mart Krupovic, RNA Virus Discovery Consortium, Peter Simmonds, Nikos C. Kyrpides, Uri Gophna, Valerian V. Dolja and Eugene Koonin
Government of the United States of America - National Center for Biotechnology Information, Tel Aviv University - The Shmunis School of Biomedicine and Cancer Research, University of California, Berkeley - Department of Energy Joint Genome Institute, Government of the United States of America - National Center for Biotechnology Information, University of California, Berkeley - Department of Energy Joint Genome Institute, University of Paris-Saclay - Institut Pasteur, Université de Paris - Archaeal Virology Unit, University of Oxford - Nuffield Department of Medicine, University of California, Berkeley - Department of Energy Joint Genome Institute, Tel Aviv University - The Shmunis School of Biomedicine and Cancer Research, Oregon State University - Department of Botany and Plant Pathology and Government of the United States of America - National Institutes of Health (NIH)
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Citation 1
5.
RNA Binding Regulation is a New Dimension in the Type I IFN Response
Number of pages: 27Posted: 04 Jun 2025
Louisa Iselin, Yana Demyanenko, Natasha Palmalux, Azman Embarc Buh, Wael Kamel, Peter Simmonds, Shabaz Mohammed, Alfredo Castello and Sneak Peek Administrator
University of Glasgow - Centre for Virus Research (CVR), Rosalind Franklin Institute, University of Glasgow, University of Glasgow - Centre for Virus Research (CVR), University of Glasgow, University of Oxford - Nuffield Department of Medicine, University of Oxford, University of Glasgow and Independent
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