Analysis of 6.4 million SARS-CoV-2 genomes identifies mutations associated with fitness.

Journal

medRxiv : the preprint server for health sciences
Titre abrégé: medRxiv
Pays: United States
ID NLM: 101767986

Informations de publication

Date de publication:
16 Feb 2022
Historique:
entrez: 23 2 2022
pubmed: 24 2 2022
medline: 24 2 2022
Statut: epublish

Résumé

Repeated emergence of SARS-CoV-2 variants with increased fitness necessitates rapid detection and characterization of new lineages. To address this need, we developed PyR A Bayesian hierarchical model of all SARS-CoV-2 viral genomes predicts lineage fitness and identifies associated mutations.

Identifiants

DOI: 10.1101/2021.09.07.21263228 PMID: 35194619 PMC: PMC8863165
pubmed: 35194619
doi: 10.1101/2021.09.07.21263228
pmc: PMC8863165
pii:
doi:

Types de publication

Preprint

Langues

eng

Subventions

Organisme : NIAID NIH HHS
ID : R37 AI147868
Pays : United States

Commentaires et corrections

Type : UpdateIn

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Auteurs

Fritz Obermeyer (F)

Broad Institute of MIT and Harvard; 415 Main Street, Cambridge, MA 02142, USA.
Pyro Committee, Linux AI & Data Foundation; 548 Market St San Francisco, California 94104.

Martin Jankowiak (M)

Broad Institute of MIT and Harvard; 415 Main Street, Cambridge, MA 02142, USA.
Pyro Committee, Linux AI & Data Foundation; 548 Market St San Francisco, California 94104.

Nikolaos Barkas (N)

Broad Institute of MIT and Harvard; 415 Main Street, Cambridge, MA 02142, USA.

Stephen F Schaffner (SF)

Broad Institute of MIT and Harvard; 415 Main Street, Cambridge, MA 02142, USA.
Department of Organismic and Evolutionary Biology, Harvard University; Cambridge, MA 02138, USA.
Department of Immunology and Infectious Diseases, Harvard T. H. Chan School of Public Health, Harvard University; Boston, MA, USA.

Jesse D Pyle (JD)

Broad Institute of MIT and Harvard; 415 Main Street, Cambridge, MA 02142, USA.

Lonya Yurkovetskiy (L)

Program in Molecular Medicine, University of Massachusetts Medical School; Worcester, MA 01605, USA.

Matteo Bosso (M)

Program in Molecular Medicine, University of Massachusetts Medical School; Worcester, MA 01605, USA.

Daniel J Park (DJ)

Broad Institute of MIT and Harvard; 415 Main Street, Cambridge, MA 02142, USA.

Mehrtash Babadi (M)

Broad Institute of MIT and Harvard; 415 Main Street, Cambridge, MA 02142, USA.

Bronwyn L MacInnis (BL)

Broad Institute of MIT and Harvard; 415 Main Street, Cambridge, MA 02142, USA.
Department of Immunology and Infectious Diseases, Harvard T. H. Chan School of Public Health, Harvard University; Boston, MA, USA.
Massachusetts Consortium on Pathogen Readiness; Boston, MA 02115, USA.

Jeremy Luban (J)

Broad Institute of MIT and Harvard; 415 Main Street, Cambridge, MA 02142, USA.
Program in Molecular Medicine, University of Massachusetts Medical School; Worcester, MA 01605, USA.
Massachusetts Consortium on Pathogen Readiness; Boston, MA 02115, USA.
Ragon Institute of MGH, MIT, and Harvard; 400 Technology Square, Cambridge, MA 02139, USA.

Pardis C Sabeti (PC)

Broad Institute of MIT and Harvard; 415 Main Street, Cambridge, MA 02142, USA.
Department of Organismic and Evolutionary Biology, Harvard University; Cambridge, MA 02138, USA.
Department of Immunology and Infectious Diseases, Harvard T. H. Chan School of Public Health, Harvard University; Boston, MA, USA.
Massachusetts Consortium on Pathogen Readiness; Boston, MA 02115, USA.
Howard Hughes Medical Institute; 4000 Jones Bridge Rd, Chevy Chase, MD 20815, USA.

Jacob E Lemieux (JE)

Broad Institute of MIT and Harvard; 415 Main Street, Cambridge, MA 02142, USA.
Division of Infectious Diseases, Massachusetts General Hospital; Boston, MA, USA.

Classifications MeSH