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Open Access
Peer-reviewed
Research Article
Combining genomics and epidemiology to track mumps virus transmission in the United States
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Shirlee Wohl ,
Contributed equally to this work with: Shirlee Wohl, Hayden C. Metsky, Stephen F. Schaffner
Roles Conceptualization, Data curation, Formal analysis, Investigation, Project administration, Visualization, Writing – original draft, Writing – review & editing
* E-mail: swohl@broadinstitute.org (SW); bronwyn@broadinstitute.org (BLM)
Affiliations Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America, Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, United States of America
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Hayden C. Metsky ,
Contributed equally to this work with: Shirlee Wohl, Hayden C. Metsky, Stephen F. Schaffner
Roles Data curation, Formal analysis, Methodology, Visualization, Writing – original draft, Writing – review & editing
Affiliations Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America, Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States of America
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Stephen F. Schaffner ,
Contributed equally to this work with: Shirlee Wohl, Hayden C. Metsky, Stephen F. Schaffner
Roles Formal analysis, Visualization, Writing – original draft, Writing – review & editing
Affiliations Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America, Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, United States of America, Department of Immunology and Infectious Diseases, Harvard TH Chan School of Public Health, Boston, Massachusetts, United States of America
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Anne Piantadosi,
Roles Conceptualization, Formal analysis, Investigation, Methodology, Visualization, Writing – original draft, Writing – review & editing
Affiliations Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America, Division of Infectious Diseases, Department of Medicine, Massachusetts General Hospital, Boston, Massachusetts, United States of America
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Meagan Burns,
Roles Data curation, Investigation, Writing – review & editing
Affiliation Massachusetts Department of Public Health, Jamaica Plain, Massachusetts, United States of America
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Joseph A. Lewnard,
Roles Formal analysis, Methodology, Visualization, Writing – original draft, Writing – review & editing
Affiliation Division of Epidemiology and Biostatistics, School of Public Health, University of California, Berkeley, Berkeley, California, United States of America
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Bridget Chak,
Roles Formal analysis, Investigation, Project administration
Affiliations Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America, Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, United States of America
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Lydia A. Krasilnikova,
Roles Formal analysis, Writing – original draft, Writing – review & editing
Affiliations Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America, Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, United States of America
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Katherine J. Siddle,
Roles Conceptualization, Formal analysis, Investigation, Methodology, Writing – review & editing
Affiliations Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America, Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, United States of America
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Christian B. Matranga,
Roles Conceptualization, Methodology, Supervision, Writing – review & editing
Affiliation Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America
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Bettina Bankamp,
Roles Investigation
Affiliation Division of Viral Diseases, Centers for Disease Control and Prevention, Atlanta, Georgia, United States of America
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Scott Hennigan,
Roles Investigation
Affiliation Massachusetts Department of Public Health, Jamaica Plain, Massachusetts, United States of America
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Brandon Sabina,
Roles Investigation
Affiliation Massachusetts Department of Public Health, Jamaica Plain, Massachusetts, United States of America
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Elizabeth H. Byrne,
Roles Formal analysis, Visualization
Affiliations Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America, Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, United States of America
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Rebecca J. McNall,
Roles Data curation
Affiliation Division of Viral Diseases, Centers for Disease Control and Prevention, Atlanta, Georgia, United States of America
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Rickey R. Shah,
Roles Investigation, Methodology
Affiliations Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America, Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, United States of America
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James Qu,
Roles Investigation
Affiliation Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America
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Daniel J. Park,
Roles Software, Supervision, Writing – review & editing
Affiliation Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America
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Soheyla Gharib,
Roles Investigation
Affiliation Harvard University Health Services, Harvard University, Cambridge, Massachusetts, United States of America
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Susan Fitzgerald,
Roles Investigation, Supervision
Affiliation Harvard University Health Services, Harvard University, Cambridge, Massachusetts, United States of America
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Paul Barreira,
Roles Investigation, Supervision, Writing – review & editing
Affiliation Harvard University Health Services, Harvard University, Cambridge, Massachusetts, United States of America
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Stephen Fleming,
Roles Investigation
Affiliation Massachusetts Department of Public Health, Jamaica Plain, Massachusetts, United States of America
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Susan Lett,
Roles Investigation
Affiliation Massachusetts Department of Public Health, Jamaica Plain, Massachusetts, United States of America
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Paul A. Rota ,
Roles Resources, Supervision, Writing – review & editing
¶‡ These authors jointly supervised this work.
Affiliation Division of Viral Diseases, Centers for Disease Control and Prevention, Atlanta, Georgia, United States of America
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Lawrence C. Madoff ,
Roles Investigation, Resources, Supervision, Writing – review & editing
¶‡ These authors jointly supervised this work.
Affiliations Massachusetts Department of Public Health, Jamaica Plain, Massachusetts, United States of America, Department of Medicine, University of Massachusetts Medical School, Worcester, Massachusetts, United States of America
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Nathan L. Yozwiak ,
Roles Project administration, Supervision, Writing – original draft, Writing – review & editing
¶‡ These authors jointly supervised this work.
Affiliations Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America, Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, United States of America
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Bronwyn L. MacInnis ,
Roles Project administration, Supervision, Writing – original draft, Writing – review & editing
* E-mail: swohl@broadinstitute.org (SW); bronwyn@broadinstitute.org (BLM)
¶‡ These authors jointly supervised this work.
Affiliations Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America, Department of Immunology and Infectious Diseases, Harvard TH Chan School of Public Health, Boston, Massachusetts, United States of America
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Sandra Smole ,
Roles Conceptualization, Investigation, Resources, Supervision
¶‡ These authors jointly supervised this work.
Affiliation Massachusetts Department of Public Health, Jamaica Plain, Massachusetts, United States of America
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Yonatan H. Grad ,
Roles Conceptualization, Supervision, Writing – review & editing
¶‡ These authors jointly supervised this work.
Affiliations Department of Immunology and Infectious Diseases, Harvard TH Chan School of Public Health, Boston, Massachusetts, United States of America, Center for Communicable Disease Dynamics, Harvard TH Chan School of Public Health, Boston, Massachusetts, United States of America, Division of Infectious Diseases, Brigham and Women’s Hospital, Harvard Medical School, Boston, Massachusetts, United States of America
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Pardis C. Sabeti
Roles Conceptualization, Funding acquisition, Project administration, Resources, Supervision, Writing – review & editing
¶‡ These authors jointly supervised this work.
Affiliations Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America, Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, United States of America, Department of Immunology and Infectious Diseases, Harvard TH Chan School of Public Health, Boston, Massachusetts, United States of America, Howard Hughes Medical Institute, Chevy Chase, Maryland, United States of America
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Combining genomics and epidemiology to track mumps virus transmission in the United States
- Shirlee Wohl,
- Hayden C. Metsky,
- Stephen F. Schaffner,
- Anne Piantadosi,
- Meagan Burns,
- Joseph A. Lewnard,
- Bridget Chak,
- Lydia A. Krasilnikova,
- Katherine J. Siddle,
- Christian B. Matranga
- Published: February 11, 2020
- https://doi.org/10.1371/journal.pbio.3000611