Selected article for: "blast search and sequence query"
Author: Huang, Yi; Lau, Susanna K. P.; Woo, Patrick C. Y.; Yuen, Kwok-yung
Title: CoVDB: a comprehensive database for comparative analysis of coronavirus genes and genomes
  • Document date: 2007_10_2
    • ID: ujhgb3b0_14
    Snippet: Blast similarity search. During the process of coronavirus gene sequences analysis, we encountered a major problem when coronavirus gene sequences, especially those of orf1ab, were used for blast search against GenBank or any other coronavirus databases. When part of the orf1ab gene (e.g. nsp5) is used as the query sequence, instead of getting the gene for the specific non-structural protein that the query sequence is homologous to, the results w.....
    Document: Blast similarity search. During the process of coronavirus gene sequences analysis, we encountered a major problem when coronavirus gene sequences, especially those of orf1ab, were used for blast search against GenBank or any other coronavirus databases. When part of the orf1ab gene (e.g. nsp5) is used as the query sequence, instead of getting the gene for the specific non-structural protein that the query sequence is homologous to, the results will only show that the hits are within orf1ab, or in some cases, shown to be within the entire coronavirus genome. Much time will be needed for further analyzing the results manually in order to locate the positions of the cleavage sites of the corresponding genes for the nonstructural proteins, making it very inefficient for further downstream work.

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