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Research Article

Highly Sensitive and Specific Detection of Rare Variants in Mixed Viral Populations from Massively Parallel Sequence Data

  • Alexander R. Macalalad,

    Affiliations: Broad Institute of MIT & Harvard, Cambridge, Massachusetts, United States of America, Department of Biostatistics, Harvard University, Boston, Massachusetts, United States of America

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  • Michael C. Zody,

    Affiliation: Broad Institute of MIT & Harvard, Cambridge, Massachusetts, United States of America

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  • Patrick Charlebois,

    Affiliation: Broad Institute of MIT & Harvard, Cambridge, Massachusetts, United States of America

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  • Niall J. Lennon,

    Affiliation: Broad Institute of MIT & Harvard, Cambridge, Massachusetts, United States of America

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  • Ruchi M. Newman,

    Affiliation: Broad Institute of MIT & Harvard, Cambridge, Massachusetts, United States of America

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  • Christine M. Malboeuf,

    Affiliation: Broad Institute of MIT & Harvard, Cambridge, Massachusetts, United States of America

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  • Elizabeth M. Ryan,

    Affiliation: Broad Institute of MIT & Harvard, Cambridge, Massachusetts, United States of America

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  • Christian L. Boutwell,

    Affiliation: Ragon Institute of MGH, MIT and Harvard, Boston, Massachusetts, United States of America

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  • Karen A. Power,

    Affiliation: Ragon Institute of MGH, MIT and Harvard, Boston, Massachusetts, United States of America

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  • Doug E. Brackney,

    Affiliation: Department of Pathology, University of New Mexico School of Medicine, Albuquerque, New Mexico, United States of America

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  • Kendra N. Pesko,

    Affiliation: Department of Pathology, University of New Mexico School of Medicine, Albuquerque, New Mexico, United States of America

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  • Joshua Z. Levin,

    Affiliation: Broad Institute of MIT & Harvard, Cambridge, Massachusetts, United States of America

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  • Gregory D. Ebel,

    Affiliation: Department of Pathology, University of New Mexico School of Medicine, Albuquerque, New Mexico, United States of America

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  • Todd M. Allen,

    Affiliation: Ragon Institute of MGH, MIT and Harvard, Boston, Massachusetts, United States of America

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  • Bruce W. Birren,

    Affiliation: Broad Institute of MIT & Harvard, Cambridge, Massachusetts, United States of America

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  • Matthew R. Henn mail

    mhenn@broadinstitute.org

    Affiliation: Broad Institute of MIT & Harvard, Cambridge, Massachusetts, United States of America

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  • Published: March 15, 2012
  • DOI: 10.1371/journal.pcbi.1002417

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