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Multi-query sequence BLAST output examination with MuSeqBox.

L Xing1, V Brendel

  • 1Department of Zoology and Genetics, Iowa State University, Ames, IA 50011, USA.

Bioinformatics (Oxford, England)
|August 29, 2001
PubMed
Summary
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MuSeqBox is a C++ program that parses BLAST output, enabling efficient annotation and analysis of large sequence datasets. It offers powerful filtering tools for bioinformatics research, particularly for expressed sequence tag (EST) collections.

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics

Background:

  • Large-scale sequence comparison generates substantial BLAST output.
  • Efficient parsing and filtering of BLAST results are crucial for data analysis.
  • Existing tools may lack comprehensive features for managing and annotating large datasets.

Purpose of the Study:

  • To develop MuSeqBox, a program designed to parse BLAST output and store hit attributes in a tabular format.
  • To provide users with selection criteria for filtering BLAST hits based on specific attributes.
  • To offer a powerful annotation tool for analyzing extensive query sequences against databases.

Main Methods:

  • The program, MuSeqBox, is implemented in standard C++.
  • It processes standard stand-alone or network-client BLAST program outputs.

Related Experiment Videos

  • User-defined selection criteria are applied to filter BLAST hits.

    • Main Results:

    • MuSeqBox successfully parses BLAST output and stores hit attributes in a tabular format.
    • The program allows for flexible filtering of hits based on user-specified criteria.
    • Demonstrated application in the annotation and analysis of expressed sequence tag (EST) collections.

    Conclusions:

    • MuSeqBox is a valuable tool for the annotation and analysis of large query sequence sets.
    • It enhances the efficiency of processing and interpreting BLAST results.
    • The program facilitates comprehensive analysis of EST collections in bioinformatics research.