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TFExplorer: integrated analysis database for predicted transcription regulatory elements.

Jinsoo Kim1, Jungmin Seo, Young Seek Lee

  • 1National Genome Information Center KRIBB, Daejeon, Korea.

Bioinformatics (Oxford, England)
|October 7, 2004
PubMed
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TFExplorer is a new database that identifies transcription factor binding sites in gene promoter regions for humans, mice, and rats. It aids in understanding gene regulation through predicted regulatory elements and phylogenetic footprinting.

Area of Science:

  • Genomics
  • Bioinformatics
  • Molecular Biology

Background:

  • TFExplorer is a web-based integrated database.
  • It focuses on predicted regulatory elements in human, mouse, and rat genomes.
  • The database provides information on transcription factor binding sites and phylogenetic footprinting.

Purpose of the Study:

  • To provide a comprehensive resource for exploring predicted regulatory elements.
  • To facilitate the identification of transcription factor binding sites within promoter regions.
  • To enable motif-based searching for genes with specific promoter sequence patterns.

Main Methods:

  • Development of a web-based integrated database.
  • Prediction of transcription factor binding sites in promoter regions.

Related Experiment Videos

  • Incorporation of phylogenetic footprinting information.
  • Implementation of a motif-searching tool for promoter sequences.

    • Main Results:

    • TFExplorer offers predicted binding sites for transcription factors in promoter regions.
    • Phylogenetic footprinting data is integrated for comparative analysis.
    • A motif-searching function allows users to find genes based on promoter sequence patterns.

    Conclusions:

    • TFExplorer serves as a valuable tool for researchers studying gene regulation.
    • The database enhances the understanding of transcription factor interactions.
    • It facilitates the discovery of novel regulatory elements and gene functions.