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    An interactive COVID-19 virus Mutation Tracker (CovMT) with a particular focus on critical mutations in the Receptor Binding Domain (RBD) region of the Spike protein

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    Type
    Preprint
    Authors
    Alam, Intikhab cc
    Radovanovic, Aleksandar
    Incitti, Roberto
    Kamau, Allan
    Alarawi, Muhammed
    Azhar, Esam I.
    Gojobori, Takashi cc
    KAUST Department
    Biological and Environmental Science and Engineering (BESE) Division
    Bioscience Program
    Computational Bioscience Research Center (CBRC)
    Computer, Electrical and Mathematical Science and Engineering (CEMSE) Division
    Date
    2021-01-25
    Permanent link to this record
    http://hdl.handle.net/10754/667736
    
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    Abstract
    Almost one year has passed since the appearance of SARS-CoV-2, causing the COVID-19 pandemic. The number of confirmed SARS-Cov-2 cases worldwide has now reached ~92 million, with 2 million reported deaths (https://covid19.who.int). Nearly 365,000 SARS-Cov-2 genomes were sequenced from COVID-19 samples and added to public resources such as GISAID (https://gisaid.org). With the vaccines becoming available or entering trials (https://covid19.trackvaccines.org), it is vital to keep track of mutations in the genome of SARS-CoV-2, especially in the Spike protein Receptor Binding Domain (RBD) region, which could have a potential impact on disease severity and treatment strategies. In the wake of a recent increase in cases with a potentially more infective RBD mutation (N501Y) in the United Kingdom, countries worldwide are concerned about the spread of this or similar variants. Impressive sampling and timely increase in sequencing efforts related to COVID-19 in the United Kingdom helped detect and monitor the spread of the new N501Y variant. Similar sequencing efforts are needed in other countries for timely tracking of this or different variants. To track geographic sequencing efforts and mutations, with a particular focus on RBD region of the Spike protein, we present our daily updated COVID-19 virus Mutation Tracker system, see https://www.cbrc.kaust.edu.sa/covmt.
    Citation
    Alam, I., Radovanovic, A., Incitti, R., Kamau, A., Alarawi, M., Azhar, E. I., & Gojobori, T. (2021). An interactive COVID-19 virus Mutation Tracker (CovMT) with a particular focus on critical mutations in the Receptor Binding Domain (RBD) region of the Spike protein. doi:10.1101/2021.01.22.21249716
    Sponsors
    We are thankful to KAUST Information Technology (IT) and KAUST supercomputing laboratory (KSL) teams for maintaining the computational resources and help in publishing the CovMT website. We pay special thanks to GISAID for providing daily updates on sequenced isolates, worldwide. This work is supported by King Abdulaziz City of Science and Technology (KACST) grant for COVID-19 research, number 0004-002-01-20-5.
    Publisher
    Cold Spring Harbor Laboratory
    DOI
    10.1101/2021.01.22.21249716
    Additional Links
    http://medrxiv.org/lookup/doi/10.1101/2021.01.22.21249716
    https://www.medrxiv.org/content/medrxiv/early/2021/01/25/2021.01.22.21249716.full.pdf
    ae974a485f413a2113503eed53cd6c53
    10.1101/2021.01.22.21249716
    Scopus Count
    Collections
    Biological and Environmental Science and Engineering (BESE) Division; Preprints; Bioscience Program; Computational Bioscience Research Center (CBRC); Computer, Electrical and Mathematical Science and Engineering (CEMSE) Division

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