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Highly Accurate Chip-Based Resequencing of SARS-CoV-2 Clinical Samples.
Hoff, Kendall; Ding, Xun; Carter, Lucas; Duque, John; Lin, Ju-Yu; Dung, Samantha; Singh, Priyanka; Sun, Jiayi; Crnogorac, Filip; Swaminathan, Radha; Alden, Emily N; Zhu, Xuechen; Shimada, Ryota; Posavi, Marijan; Hull, Noah; Dinwiddie, Darrell; Halasz, Adam M; McGall, Glenn; Zhou, Wei; Edwards, Jeremy S.
  • Hoff K; Centrillion Technologies, Palo Alto, California 94303, United States.
  • Ding X; Centrillion Technologies, Palo Alto, California 94303, United States.
  • Carter L; Centrillion Technologies, Palo Alto, California 94303, United States.
  • Duque J; Centrillion Technologies, Palo Alto, California 94303, United States.
  • Lin JY; Centrillion Technologies, Palo Alto, California 94303, United States.
  • Dung S; Centrillion Technologies, Palo Alto, California 94303, United States.
  • Singh P; Centrillion Technologies, Palo Alto, California 94303, United States.
  • Sun J; Centrillion Technologies, Palo Alto, California 94303, United States.
  • Crnogorac F; Centrillion Technologies, Palo Alto, California 94303, United States.
  • Swaminathan R; Department of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, New Mexico 87131, United States.
  • Alden EN; Department of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, New Mexico 87131, United States.
  • Zhu X; Department of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, New Mexico 87131, United States.
  • Shimada R; Department of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, New Mexico 87131, United States.
  • Posavi M; Department of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, New Mexico 87131, United States.
  • Hull N; Wyoming Public Health Laboratory, Wyoming Department of Health, Cheyenne, Wyoming 82007, United States.
  • Dinwiddie D; Department of Pediatrics, University of New Mexico Health Sciences Center, Albuquerque, New Mexico 87131, United States.
  • Halasz AM; Department of Mathematics, West Virginia University, Morgantown, West Virginia 26506, United States.
  • McGall G; Centrillion Technologies, Palo Alto, California 94303, United States.
  • Zhou W; Centrillion Technologies, Palo Alto, California 94303, United States.
  • Edwards JS; Department of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, New Mexico 87131, United States.
Langmuir ; 37(16): 4763-4771, 2021 04 27.
Article in English | MEDLINE | ID: covidwho-1180210
ABSTRACT
SARS-CoV-2 has infected over 128 million people worldwide, and until a vaccine is developed and widely disseminated, vigilant testing and contact tracing are the most effective ways to slow the spread of COVID-19. Typical clinical testing only confirms the presence or absence of the virus, but rather, a simple and rapid testing procedure that sequences the entire genome would be impactful and allow for tracing the spread of the virus and variants, as well as the appearance of new variants. However, traditional short read sequencing methods are time consuming and expensive. Herein, we describe a tiled genome array that we developed for rapid and inexpensive full viral genome resequencing, and we have applied our SARS-CoV-2-specific genome tiling array to rapidly and accurately resequence the viral genome from eight clinical samples. We have resequenced eight samples acquired from patients in Wyoming that tested positive for SARS-CoV-2. We were ultimately able to sequence over 95% of the genome of each sample with greater than 99.9% average accuracy.
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Full text: Available Collection: International databases Database: MEDLINE Main subject: SARS-CoV-2 / COVID-19 Type of study: Prognostic study Topics: Vaccines / Variants Limits: Humans Language: English Journal: Langmuir Journal subject: Chemistry Year: 2021 Document Type: Article Affiliation country: Acs.langmuir.0c02927

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Full text: Available Collection: International databases Database: MEDLINE Main subject: SARS-CoV-2 / COVID-19 Type of study: Prognostic study Topics: Vaccines / Variants Limits: Humans Language: English Journal: Langmuir Journal subject: Chemistry Year: 2021 Document Type: Article Affiliation country: Acs.langmuir.0c02927