SARS-CoV-2 variant identification using a genome tiling array and genotyping probes.

IF 1.7 4区 医学 Q3 PHARMACOLOGY & PHARMACY
Ryota Shimada, Emily N Alden, Kendall Hoff, Xun Ding, Jiayi Sun, Adam M Halasz, Wei Zhou, Jeremy S Edwards
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引用次数: 2

Abstract

With over 5.5 million deaths worldwide attributed to the respiratory disease COVID-19 caused by the novel coronavirus SARS-CoV-2, it is essential that continued efforts be made to track the evolution and spread of the virus globally. The authors previously presented a rapid and cost-effective method to sequence the entire SARS-CoV-2 genome with 95% coverage and 99.9% accuracy. This method is advantageous for identifying and tracking variants in the SARS-CoV-2 genome compared with traditional short-read sequencing methods which can be time-consuming and costly. Herein, the addition of genotyping probes to a DNA chip that targets known SARS-CoV-2 variants is presented. The incorporation of genotyping probe sets along with the advent of a moving average filter improved the sequencing coverage and accuracy of the SARS-CoV-2 genome.

利用基因组拼接阵列和基因分型探针鉴定SARS-CoV-2变异。
由于全球有550多万人死于由新型冠状病毒SARS-CoV-2引起的呼吸道疾病COVID-19,因此必须继续努力追踪该病毒在全球的演变和传播。作者之前提出了一种快速且具有成本效益的方法来对整个SARS-CoV-2基因组进行测序,覆盖率为95%,准确度为99.9%。与传统的短读测序方法相比,该方法在识别和跟踪SARS-CoV-2基因组变异方面具有优势,传统的短读测序方法耗时且成本高。本文提出了将基因分型探针添加到针对已知SARS-CoV-2变体的DNA芯片中。基因分型探针组的结合以及移动平均过滤器的出现提高了SARS-CoV-2基因组测序的覆盖率和准确性。
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来源期刊
Personalized medicine
Personalized medicine 医学-药学
CiteScore
3.30
自引率
4.30%
发文量
49
审稿时长
6-12 weeks
期刊介绍: Personalized Medicine (ISSN 1741-0541) translates recent genomic, genetic and proteomic advances into the clinical context. The journal provides an integrated forum for all players involved - academic and clinical researchers, pharmaceutical companies, regulatory authorities, healthcare management organizations, patient organizations and others in the healthcare community. Personalized Medicine assists these parties to shape thefuture of medicine by providing a platform for expert commentary and analysis. The journal addresses scientific, commercial and policy issues in the field of precision medicine and includes news and views, current awareness regarding new biomarkers, concise commentary and analysis, reports from the conference circuit and full review articles.
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