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The eukaryotic promoter database (EPD).

R C Périer1, V Praz, T Junier

  • 1Swiss Institute of Bioinformatics and Swiss Institute for Experimental Cancer Research, Ch. des Boveresses 155, 1066-Epalinges s/Lausanne, Switzerland.

Nucleic Acids Research
|December 11, 1999
PubMed
Summary
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The Eukaryotic Promoter Database (EPD) provides experimentally verified eukaryotic RNA Polymerase II promoter sequences. It offers comprehensive annotations and cross-references for comparative analysis and access to updated promoter element matrices.

Area of Science:

  • Genomics
  • Molecular Biology
  • Bioinformatics

Background:

  • The Eukaryotic Promoter Database (EPD) is a curated resource for eukaryotic RNA Polymerase II (POL II) promoters.
  • It contains promoters with experimentally determined transcription start sites, ensuring data accuracy.

Purpose of the Study:

  • To provide a comprehensive, non-redundant collection of eukaryotic POL II promoters.
  • To facilitate comparative sequence analysis and promoter research through structured data and web interfaces.

Main Methods:

  • Experimental determination of transcription start sites.
  • Annotation of promoter sequences with mapping data and cross-references to other biological databases (EMBL, SWISS-PROT, TRANSFAC).
  • Development of WWW-based interfaces for data access and analysis.

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Main Results:

  • EPD offers direct access to promoter sequences via pointers to nucleotide sequence entries.
  • The database includes detailed annotations, cross-references, and bibliographic information.
  • Yearly updated base frequency matrices for eukaryotic promoter elements are available.

Conclusions:

  • EPD serves as a valuable resource for researchers studying eukaryotic gene regulation.
  • Its structured data and web tools enable efficient extraction and analysis of promoter subsets.
  • The database supports navigation to related resources, enhancing its utility.