GAMBIT (Genomic Approximation Method for Bacterial Identification and Tracking): A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification

• Jared Lumpe ,

  Roles Conceptualization, Data curation, Formal analysis, Investigation, Methodology, Software, Validation, Writing – original draft

  * E-mail: jared@jaredlumpe.com (JL); mpandori@med.unr.edu (MP); dhess@unr.edu (DH)

  Affiliation Independent Researcher, Meriden, Connecticut, United States of America

  https://orcid.org/0000-0003-1177-9411

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• Lynette Gumbleton,

  Roles Software, Validation

  Affiliation Nevada State Public Health Laboratory, Reno, NV, United States of America

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• Andrew Gorzalski,

  Roles Formal analysis, Methodology, Validation, Writing – review & editing

  Affiliation Nevada State Public Health Laboratory, Reno, NV, United States of America

  https://orcid.org/0000-0002-0268-2039

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• Kevin Libuit,

  Roles Data curation, Methodology, Software, Writing – original draft, Writing – review & editing

  Affiliation Theiagen Consulting LLC, Highlands Ranch, CO, United States of America

  https://orcid.org/0000-0002-0894-1820

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• Vici Varghese,

  Roles Formal analysis, Investigation, Validation, Writing – original draft

  Affiliation Alameda County Department of Public Health, Oakland, CA, United States of America

  https://orcid.org/0000-0003-2669-5966

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• Tyler Lloyd,

  Roles Investigation, Validation

  Affiliation Alameda County Department of Public Health, Oakland, CA, United States of America

  https://orcid.org/0000-0002-4581-4871

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• Farid Tadros,

  Roles Software

  Affiliation Biology Department, Santa Clara University, Santa Clara, CA, United States of America

  https://orcid.org/0000-0002-5107-809X

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• Tyler Arsimendi,

  Roles Validation

  Affiliation Biology Department, Santa Clara University, Santa Clara, CA, United States of America

  https://orcid.org/0000-0002-1883-501X

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• Eileen Wagner,

  Roles Methodology, Validation

  Affiliation Theiagen Consulting LLC, Highlands Ranch, CO, United States of America

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• Craig Stephens,

  Roles Funding acquisition, Resources, Validation

  Affiliation Biology Department, Santa Clara University, Santa Clara, CA, United States of America

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• Joel Sevinsky,

  Roles Funding acquisition, Methodology, Software, Writing – review & editing

  Affiliation Theiagen Consulting LLC, Highlands Ranch, CO, United States of America

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• David Hess ,

  Roles Conceptualization, Data curation, Formal analysis, Funding acquisition, Investigation, Methodology, Project administration, Resources, Software, Supervision, Validation, Writing – original draft, Writing – review & editing

  * E-mail: jared@jaredlumpe.com (JL); mpandori@med.unr.edu (MP); dhess@unr.edu (DH)

  Affiliations Nevada State Public Health Laboratory, Reno, NV, United States of America, Biology Department, Santa Clara University, Santa Clara, CA, United States of America, Department of Pathology and Laboratory Medicine, University of Nevada, Reno School of Medicine, Reno, NV, United States of America

  https://orcid.org/0000-0003-2821-1021

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• Mark Pandori

  Roles Conceptualization, Funding acquisition, Investigation, Methodology, Project administration, Resources, Validation, Writing – original draft, Writing – review & editing

  * E-mail: jared@jaredlumpe.com (JL); mpandori@med.unr.edu (MP); dhess@unr.edu (DH)

  Affiliations Nevada State Public Health Laboratory, Reno, NV, United States of America, Alameda County Department of Public Health, Oakland, CA, United States of America, Department of Pathology and Laboratory Medicine, University of Nevada, Reno School of Medicine, Reno, NV, United States of America, Department of Microbiology and Immunology, University of Nevada, Reno School of Medicine, Reno, NV, United States of America

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