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MpoxRadar: a worldwide MPXV genomic surveillance dashboard.
Nasri, Ferdous; Kongkitimanon, Kunaphas; Wittig, Alice; Cortés, Jorge Sánchez; Brinkmann, Annika; Nitsche, Andreas; Schmachtenberg, Anna-Juliane; Renard, Bernhard Y; Fuchs, Stephan.
Affiliation
  • Nasri F; Data Analytics & Computational Statistics, Hasso Plattner Institute, University of Potsdam, Prof.-Dr.-Helmert-Straße 2-3, 14482 Potsdam, Germany.
  • Kongkitimanon K; Data Analytics & Computational Statistics, Hasso Plattner Institute, University of Potsdam, Prof.-Dr.-Helmert-Straße 2-3, 14482 Potsdam, Germany.
  • Wittig A; Data Analytics & Computational Statistics, Hasso Plattner Institute, University of Potsdam, Prof.-Dr.-Helmert-Straße 2-3, 14482 Potsdam, Germany.
  • Cortés JS; Genome Competence Center (MF1), Robert Koch Institute, Seestraße 10, 13353 Berlin, Germany.
  • Brinkmann A; Data Analytics & Computational Statistics, Hasso Plattner Institute, University of Potsdam, Prof.-Dr.-Helmert-Straße 2-3, 14482 Potsdam, Germany.
  • Nitsche A; Centre for Biological Threats and Special Pathogens, Robert Koch Institute, Seestrasse 10, Berlin 13353, Germany.
  • Schmachtenberg AJ; Centre for Biological Threats and Special Pathogens, Robert Koch Institute, Seestrasse 10, Berlin 13353, Germany.
  • Renard BY; Data Analytics & Computational Statistics, Hasso Plattner Institute, University of Potsdam, Prof.-Dr.-Helmert-Straße 2-3, 14482 Potsdam, Germany.
  • Fuchs S; Data Analytics & Computational Statistics, Hasso Plattner Institute, University of Potsdam, Prof.-Dr.-Helmert-Straße 2-3, 14482 Potsdam, Germany.
Nucleic Acids Res ; 51(W1): W331-W337, 2023 07 05.
Article in En | MEDLINE | ID: mdl-37167010
The mpox virus (MPXV) is mutating at an exceptional rate for a DNA virus and its global spread is concerning, making genomic surveillance a necessity. With MpoxRadar, we provide an interactive dashboard to track virus variants on mutation level worldwide. MpoxRadar allows users to select among different genomes as reference for comparison. The occurrence of mutation profiles based on the selected reference is indicated on an interactive world map that shows the respective geographic sampling site in customizable time ranges to easily follow the frequency or trend of defined mutations. Furthermore, the user can filter for specific mutations, genes, countries, genome types, and sequencing protocols and download the filtered data directly from MpoxRadar. On the server, we automatically download all MPXV genomes and metadata from the National Center for Biotechnology Information (NCBI) on a daily basis, align them to the different reference genomes, generate mutation profiles, which are stored and linked to the available metainformation in a database. This makes MpoxRadar a practical tool for the genomic survaillance of MPXV, supporting users with limited computational resources. MpoxRadar is open-source and freely accessible at https://MpoxRadar.net.
Subject(s)

Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: Software / Genome, Viral / Monkeypox virus / Genomics Type of study: Guideline / Screening_studies Language: En Journal: Nucleic Acids Res Year: 2023 Document type: Article Affiliation country: Germany Country of publication: United kingdom

Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: Software / Genome, Viral / Monkeypox virus / Genomics Type of study: Guideline / Screening_studies Language: En Journal: Nucleic Acids Res Year: 2023 Document type: Article Affiliation country: Germany Country of publication: United kingdom