SARS-CoV-2 clade dynamics and their associations with hospitalisations during the first two years of the COVID-19 pandemic

• Taavi Päll ,

  Contributed equally to this work with: Taavi Päll, Aare Abroi

  Roles Formal analysis, Investigation, Software, Visualization, Writing – original draft, Writing – review & editing

  Affiliation Department of Microbiology, Faculty of Medicine, Institute of Biomedicine and Translational Medicine, University of Tartu, Tartu, Estonia

  https://orcid.org/0000-0001-7606-675X

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• Aare Abroi ,

  Contributed equally to this work with: Taavi Päll, Aare Abroi

  Roles Conceptualization, Writing – review & editing

  Affiliation Faculty of Science and Technology, Institute of Technology, University of Tartu, Tartu, Estonia

  https://orcid.org/0000-0001-5644-8080

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• Radko Avi,

  Roles Conceptualization, Methodology

  Affiliation Department of Microbiology, Faculty of Medicine, Institute of Biomedicine and Translational Medicine, University of Tartu, Tartu, Estonia

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• Heiki Niglas,

  Roles Data curation, Resources

  Affiliation Department of Communicable Diseases, Health Board, Tallinn, Estonia

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• Arina Shablinskaja,

  Roles Investigation

  Affiliation Department of Microbiology, Faculty of Medicine, Institute of Biomedicine and Translational Medicine, University of Tartu, Tartu, Estonia

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• Merit Pauskar,

  Roles Investigation

  Affiliation Department of Microbiology, Faculty of Medicine, Institute of Biomedicine and Translational Medicine, University of Tartu, Tartu, Estonia

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• Ene-Ly Jõgeda,

  Roles Investigation

  Affiliation Department of Microbiology, Faculty of Medicine, Institute of Biomedicine and Translational Medicine, University of Tartu, Tartu, Estonia

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• Hiie Soeorg,

  Roles Investigation, Writing – review & editing

  Affiliation Department of Microbiology, Faculty of Medicine, Institute of Biomedicine and Translational Medicine, University of Tartu, Tartu, Estonia

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• Eveli Kallas,

  Roles Investigation

  Affiliation Department of Microbiology, Faculty of Medicine, Institute of Biomedicine and Translational Medicine, University of Tartu, Tartu, Estonia

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• Andrio Lahesaare,

  Roles Investigation, Resources

  Affiliation SYNLAB Eesti OÜ, Tallinn, Estonia

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• Kai Truusalu,

  Roles Investigation

  Affiliation Department of Microbiology, Faculty of Medicine, Institute of Biomedicine and Translational Medicine, University of Tartu, Tartu, Estonia

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• Dagmar Hoidmets,

  Roles Investigation

  Affiliation Department of Microbiology, Faculty of Medicine, Institute of Biomedicine and Translational Medicine, University of Tartu, Tartu, Estonia

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• Olga Sadikova,

  Roles Resources

  Affiliation Department of Communicable Diseases, Health Board, Tallinn, Estonia

  https://orcid.org/0009-0002-6691-0261

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• Kaspar Ratnik,

  Roles Investigation, Resources

  Affiliation SYNLAB Eesti OÜ, Tallinn, Estonia

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• Hanna Sepp,

  Roles Investigation, Resources

  Affiliation Department of Communicable Diseases, Health Board, Tallinn, Estonia

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• Liidia Dotsenko,

  Roles Investigation, Resources

  Affiliation Department of Communicable Diseases, Health Board, Tallinn, Estonia

  ⨯
• Jevgenia Epštein,

  Roles Investigation, Resources

  Affiliation Department of Communicable Diseases, Health Board, Tallinn, Estonia

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• Heleene Suija,

  Roles Investigation, Resources

  Affiliation Department of Communicable Diseases, Health Board, Tallinn, Estonia

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• Katrin Kaarna,

  Roles Project administration, Resources

  Affiliations Clinical Research Centre, Faculty of Medicine, Institute of Clinical Medicine, University of Tartu, Tartu, Estonia, Tartu University Hospital, Tartu, Estonia

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• Steven Smit,

  Roles Data curation, Software

  Affiliation Institute of Genomics, Faculty of Science and Technology, University of Tartu, Tartu, Estonia

  https://orcid.org/0000-0002-3791-635X

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• Lili Milani,

  Roles Funding acquisition, Resources

  Affiliation Institute of Genomics, Faculty of Science and Technology, University of Tartu, Tartu, Estonia

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• Mait Metspalu,

  Roles Funding acquisition, Resources

  Affiliation Institute of Genomics, Faculty of Science and Technology, University of Tartu, Tartu, Estonia

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• Ott Eric Oopkaup,

  Roles Software

  Affiliation High Performance Computing Centre, Faculty of Science and Technology, Institute of Computer Science, University of Tartu, Tartu, Estonia

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• Ivar Koppel,

  Roles Software, Supervision

  Affiliation High Performance Computing Centre, Faculty of Science and Technology, Institute of Computer Science, University of Tartu, Tartu, Estonia

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• Erik Jaaniso,

  Roles Data curation

  Affiliation Institute of Computer Science, Faculty of Science and Technology, University of Tartu, Tartu, Estonia

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• Ivan Kuzmin,

  Roles Data curation, Software

  Affiliation High Performance Computing Centre, Faculty of Science and Technology, Institute of Computer Science, University of Tartu, Tartu, Estonia

  ⨯
• Heleri Inno,

  Roles Data curation, Software

  Affiliation High Performance Computing Centre, Faculty of Science and Technology, Institute of Computer Science, University of Tartu, Tartu, Estonia

  ⨯
• Uku Raudvere,

  Roles Data curation, Software

  Affiliation High Performance Computing Centre, Faculty of Science and Technology, Institute of Computer Science, University of Tartu, Tartu, Estonia

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• Mari-Anne Härma,

  Roles Resources

  Affiliation Department of Communicable Diseases, Health Board, Tallinn, Estonia

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• Paul Naaber,

  Roles Resources, Writing – review & editing

  Affiliations Department of Microbiology, Faculty of Medicine, Institute of Biomedicine and Translational Medicine, University of Tartu, Tartu, Estonia, SYNLAB Eesti OÜ, Tallinn, Estonia

  https://orcid.org/0000-0002-2940-4602

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• Tuuli Reisberg,

  Roles Investigation

  Affiliation Institute of Genomics, Faculty of Science and Technology, University of Tartu, Tartu, Estonia

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• Hedi Peterson,

  Roles Software

  Affiliation Institute of Computer Science, Faculty of Science and Technology, University of Tartu, Tartu, Estonia

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• Ulvi Gerst Talas,

  Roles Methodology, Software, Writing – review & editing

  Affiliation High Performance Computing Centre, Faculty of Science and Technology, Institute of Computer Science, University of Tartu, Tartu, Estonia

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• Irja Lutsar,

  Roles Conceptualization, Funding acquisition, Supervision, Writing – review & editing

  Affiliation Department of Microbiology, Faculty of Medicine, Institute of Biomedicine and Translational Medicine, University of Tartu, Tartu, Estonia

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•  [ ... ],
• Kristi Huik

  Roles Conceptualization, Project administration, Supervision, Writing – original draft, Writing – review & editing

  * E-mail: kristi.huik@ut.ee

  Affiliation Department of Microbiology, Faculty of Medicine, Institute of Biomedicine and Translational Medicine, University of Tartu, Tartu, Estonia

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