Setup, validation, and quality control of a centralized whole-genome-sequencing laboratory: Lessons learned

Cath Arnold, Kirstin Edwards, Meeta Desai, Steve Platt, Jonathan Green, David Conway

Research output: Contribution to journalArticle

2 Citations (Scopus)

Abstract

Routine use of whole-genome analysis for infectious diseases can be used to enlighten various scenarios pertaining to public health, including identification of microbial pathogens, relating individual cases to an outbreak of infectious disease, establishing an association between an outbreak of food poisoning and a specific food vehicle, inferring drug susceptibility, source tracing of contaminants, and study of variations in the genome that affect pathogenicity/virulence. We describe the setup, validation, and ongoing verification of a centralized whole-genome-sequencing (WGS) laboratory to carry out sequencing for these public health functions for the National Infection Services, Public Health England, in the United Kingdom. The performance characteristics and quality control metrics measured during validation and verification of the entire end-to-end process (accuracy, precision, reproducibility, and repeatability) are described and include information regarding the automated pass and release of data to service users without intervention.

Original languageEnglish (US)
Article numbere00261-18
JournalJournal of clinical microbiology
Volume56
Issue number8
DOIs
StatePublished - Aug 2018

Fingerprint

Quality Control
Genome
Disease Outbreaks
Virulence
Public Health
Foodborne Diseases
United States Public Health Service
England
Communicable Diseases
Food
Infection
Pharmaceutical Preparations
United Kingdom

All Science Journal Classification (ASJC) codes

  • Microbiology (medical)

Cite this

Arnold, Cath ; Edwards, Kirstin ; Desai, Meeta ; Platt, Steve ; Green, Jonathan ; Conway, David. / Setup, validation, and quality control of a centralized whole-genome-sequencing laboratory : Lessons learned. In: Journal of clinical microbiology. 2018 ; Vol. 56, No. 8.
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Setup, validation, and quality control of a centralized whole-genome-sequencing laboratory : Lessons learned. / Arnold, Cath; Edwards, Kirstin; Desai, Meeta; Platt, Steve; Green, Jonathan; Conway, David.

In: Journal of clinical microbiology, Vol. 56, No. 8, e00261-18, 08.2018.

Research output: Contribution to journalArticle

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