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Related Experiment Videos

Genomic BLAST: custom-defined virtual databases for complete and unfinished genomes.

Leda Cummings1, Leigh Riley, Lori Black

  • 1National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.

FEMS Microbiology Letters
|November 19, 2002
PubMed
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Genomic BLAST is a new graphical tool that simplifies searching DNA and protein sequences within complete and unfinished genomes. It aids biomedical researchers by enabling comparisons against selected organism databases, enhancing genomic data exploration.

Area of Science:

  • Bioinformatics
  • Genomics
  • Computational Biology

Background:

  • Basic Local Alignment Search Tool (BLAST) is crucial for biomedical research, with genome sequencing increasing public database content.
  • Genome-derived sequences are vital resources, necessitating efficient search tools.

Purpose of the Study:

  • To introduce Genomic BLAST, a novel graphical interface for simplifying BLAST searches against diverse genome sequences.
  • To provide researchers with a user-friendly method for querying complete and unfinished genomes.

Main Methods:

  • Genomic BLAST allows users to create virtual databases from selected organisms with finished or unfinished genomes.
  • Organism selection is facilitated through a graphical taxonomy-based tree or an alphabetical list.
  • The tool supports comparisons against DNA and/or protein sequences.

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Main Results:

  • Genomic BLAST offers simplified searching against complete and unfinished genome sequences.
  • Users can select organisms via a taxonomy tree for evolutionary insights or an alphabetical list for custom databases.
  • The tool currently provides access to over 170 bacterial/archaeal and 40 eukaryotic genomes.

Conclusions:

  • Genomic BLAST enhances the utility of BLAST searches for genomic data analysis.
  • The tool supports exploration of evolutionary relationships and custom database construction.
  • It represents a significant advancement for researchers working with large-scale genomic data.