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Review_ArticleReview Article

Next Generation Sequencing for Outbreak Investigation in the Clinical Microbiology Laboratory

Caitlin E Dougherty and Erin Graf
American Society for Clinical Laboratory Science October 2019, ascls.119.001750; DOI: https://doi.org/10.29074/ascls.119.001750
Caitlin E Dougherty
Children's Hospital of Philadelphia
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Erin Graf
Children's Hospital of Philadelphia
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  1. Caitlin E Dougherty
  2. Erin Graf1
  1. Children's Hospital of Philadelphia
  1. ↵* Corresponding author; email: erinhgraf{at}gmail.com

Abstract

With the advent of next generation sequencing (NGS) technologies, genomic investigations of pathogen outbreaks are now possible at unprecedented resolution. Prior methods, requiring highly pathogen-specific protocols, can now be replaced with a single universal protocol for whole genome sequencing. Clinical applications have shown improvement in our understanding of pathogen transmission dynamics from the hospital to global level. However, there are several barriers to routine implementation in clinical microbiology laboratories. These include financial support for a non-billable test, workforce training needs, particularly for highly complex data analysis methods, and lack of FDA approved methods requiring extensive laboratory validation.

  • Virology
  • Mycology
  • Molecular Biology
  • Metagenomics
  • Received June 1, 2019.
  • Revision received August 19, 2019.
  • Accepted September 5, 2019.
  • Published by American Society for Clinical Laboratory Science
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American Society for Clinical Laboratory Science: 30 (4)
American Society for Clinical Laboratory Science
Vol. 30, Issue 4
Fall 2017
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Next Generation Sequencing for Outbreak Investigation in the Clinical Microbiology Laboratory
Caitlin E Dougherty, Erin Graf
American Society for Clinical Laboratory Science Oct 2019, ascls.119.001750; DOI: 10.29074/ascls.119.001750

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Next Generation Sequencing for Outbreak Investigation in the Clinical Microbiology Laboratory
Caitlin E Dougherty, Erin Graf
American Society for Clinical Laboratory Science Oct 2019, ascls.119.001750; DOI: 10.29074/ascls.119.001750
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  • Laboratory findings in hematology, clinical chemistry, and urinalysis for patients with thrombotic thrombocytopenic purpura
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Keywords

  • Virology
  • Mycology
  • Molecular Biology
  • Metagenomics

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