Selected article for: "antigen presentation and AP score"
Author: Brandon Malone; Boris Simovski; Clement Moline; Jun Cheng; Marius Gheorghe; Hugues Fontenelle; Ioannis Vardaxis; Simen Tennoe; Jenny-Ann Malmberg; Richard Stratford; Trevor Clancy
Title: Artificial intelligence predicts the immunogenic landscape of SARS-CoV-2: toward universal blueprints for vaccine designs
  • Document date: 2020_4_21
    • ID: cm30gyd8_83
    Snippet: We downloaded all the strains available in the GISAID database [36] as of 31.03.2020, and ran them through the Nexstrain/Augur software suite with default parameters [39] . We parsed the resulting phylogenic tree to obtain all protein variants. For each we computed a wildtype score and a mutated Antigen Presentation (AP) score for HLA-A*02:01. The mutated score is the maximum AP score among the nine possible 9-mers peptides that include the varia.....
    Document: We downloaded all the strains available in the GISAID database [36] as of 31.03.2020, and ran them through the Nexstrain/Augur software suite with default parameters [39] . We parsed the resulting phylogenic tree to obtain all protein variants. For each we computed a wildtype score and a mutated Antigen Presentation (AP) score for HLA-A*02:01. The mutated score is the maximum AP score among the nine possible 9-mers peptides that include the variant. The wildtype score is the maximum AP score for the 9-mers at the same positions in the reference (Wuhan) strain.

    Search related documents:
    Co phrase search for related documents
    • AP score and maximum AP score: 1
    • default parameter and Wuhan reference: 1
    • GISAID database and phylogenic tree: 1
    • GISAID database and protein variant: 1
    • GISAID database and Wuhan reference: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17
    • protein variant and variant include: 1, 2, 3, 4
    • protein variant and Wuhan reference: 1, 2