Transmission from vaccinated individuals in a large SARS-CoV-2 Delta variant outbreak.

Autor: Siddle KJ; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA. Electronic address: kjsiddle@broadinstitute.org., Krasilnikova LA; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138, USA., Moreno GK; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Schaffner SF; Broad Institute of Harvard and MIT, 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 02115, USA., Vostok J; Massachusetts Department of Public Health, Boston, MA 02199, USA., Fitzgerald NA; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Lemieux JE; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Division of Infectious Diseases, Massachusetts General Hospital, Boston, MA 02114, USA., Barkas N; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Loreth C; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Specht I; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Faculty of Arts and Sciences, Harvard University, Cambridge, MA 02138, USA., Tomkins-Tinch CH; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138, USA., Paull JS; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA., Schaeffer B; Department of Epidemiology, Harvard T.H. Chan School of Public Health, Harvard University, Boston, MA 02115, USA; Center for Communicable Disease Dynamics, Department of Epidemiology, Harvard T. H. Chan School of Public Health, Harvard University, Boston, MA 02115, USA., Taylor BP; Department of Epidemiology, Harvard T.H. Chan School of Public Health, Harvard University, Boston, MA 02115, USA; Center for Communicable Disease Dynamics, Department of Epidemiology, Harvard T. H. Chan School of Public Health, Harvard University, Boston, MA 02115, USA., Loftness B; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Johnson H; Massachusetts Department of Public Health, Boston, MA 02199, USA., Schubert PL; Massachusetts Department of Public Health, Boston, MA 02199, USA., Shephard HM; Massachusetts Department of Public Health, Boston, MA 02199, USA; Applied Epidemiology Fellowship, Council of State and Territorial Epidemiologists, Atlanta, GA 30345, USA., Doucette M; Massachusetts Department of Public Health, Boston, MA 02199, USA., Fink T; Massachusetts Department of Public Health, Boston, MA 02199, USA., Lang AS; Massachusetts Department of Public Health, Boston, MA 02199, USA., Baez S; Massachusetts Department of Public Health, Boston, MA 02199, USA., Beauchamp J; Massachusetts Department of Public Health, Boston, MA 02199, USA., Hennigan S; Massachusetts Department of Public Health, Boston, MA 02199, USA., Buzby E; Massachusetts Department of Public Health, Boston, MA 02199, USA., Ash S; Massachusetts Department of Public Health, Boston, MA 02199, USA., Brown J; Massachusetts Department of Public Health, Boston, MA 02199, USA., Clancy S; Massachusetts Department of Public Health, Boston, MA 02199, USA., Cofsky S; Massachusetts Department of Public Health, Boston, MA 02199, USA., Gagne L; Massachusetts Department of Public Health, Boston, MA 02199, USA., Hall J; Massachusetts Department of Public Health, Boston, MA 02199, USA., Harrington R; Massachusetts Department of Public Health, Boston, MA 02199, USA., Gionet GL; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., DeRuff KC; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Vodzak ME; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Adams GC; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Dobbins ST; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Slack SD; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Reilly SK; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Anderson LM; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Cipicchio MC; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., DeFelice MT; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Grimsby JL; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Anderson SE; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Blumenstiel BS; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Meldrim JC; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Rooke HM; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Vicente G; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Smith NL; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Messer KS; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Reagan FL; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Mandese ZM; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Lee MD; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Ray MC; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Fisher ME; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Ulcena MA; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Nolet CM; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., English SE; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Larkin KL; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Vernest K; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Chaluvadi S; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Arvidson D; Barnstable County Department of Health and the Environment, Barnstable, MA 02630, USA., Melchiono M; Barnstable County Department of Health and the Environment, Barnstable, MA 02630, USA., Covell T; Barnstable County Department of Health and the Environment, Barnstable, MA 02630, USA., Harik V; Barnstable County Department of Human Services, Barnstable, MA 02630, USA., Brock-Fisher T; Community Tracing Collaborative, Commonwealth of Massachusetts, Boston, MA 02199, USA., Dunn M; Community Tracing Collaborative, Commonwealth of Massachusetts, Boston, MA 02199, USA., Kearns A; Community Tracing Collaborative, Commonwealth of Massachusetts, Boston, MA 02199, USA., Hanage WP; Department of Epidemiology, Harvard T.H. Chan School of Public Health, Harvard University, Boston, MA 02115, USA; Center for Communicable Disease Dynamics, Department of Epidemiology, Harvard T. H. Chan School of Public Health, Harvard University, Boston, MA 02115, USA., Bernard C; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Philippakis A; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Lennon NJ; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Gabriel SB; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., Gallagher GR; Massachusetts Department of Public Health, Boston, MA 02199, USA., Smole S; Massachusetts Department of Public Health, Boston, MA 02199, USA., Madoff LC; Massachusetts Department of Public Health, Boston, MA 02199, USA., Brown CM; Massachusetts Department of Public Health, Boston, MA 02199, USA., Park DJ; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA., MacInnis BL; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Department of Immunology and Infectious Diseases, Harvard T.H. Chan School of Public Health, Harvard University, Boston, MA 02115, USA; Massachusetts Consortium for Pathogen Readiness, Boston, MA 02115, USA. Electronic address: bronwyn@broadinstitute.org., Sabeti PC; Broad Institute of Harvard and MIT, 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 02115, USA; Howard Hughes Medical Institute, Chevy Chase, MD 20815, USA; Massachusetts Consortium for Pathogen Readiness, Boston, MA 02115, USA.

Publikováno v: Cell [Cell] 2022 Feb 03; Vol. 185 (3), pp. 485-492.e10. Date of Electronic Publication: 2021 Dec 23.

Discovery and characterization of artifactual mutations in deep coverage targeted capture sequencing data due to oxidative DNA damage during sample preparation.

Autor: Costello M; Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA. costello@broadinstitute.org, Pugh TJ, Fennell TJ, Stewart C, Lichtenstein L, Meldrim JC, Fostel JL, Friedrich DC, Perrin D, Dionne D, Kim S, Gabriel SB, Lander ES, Fisher S, Getz G

Publikováno v: Nucleic acids research [Nucleic Acids Res] 2013 Apr 01; Vol. 41 (6), pp. e67. Date of Electronic Publication: 2013 Jan 08.