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MethDB--a public database for DNA methylation data.

C Grunau1, E Renault, A Rosenthal

  • 1Institute for Human Genetics, CNRS UPR 1142, Laboratoire de Séquences Répétées et Centromères Humains, 141 Rue de la Cardonille, 34396 Montpellier, France. christoph.grunau@methdb.de

Nucleic Acids Research
|January 11, 2000
PubMed
Summary
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This study introduces a unified database for DNA methylation data, consolidating diverse experimental results. The resource allows comprehensive searching and visualization of methylation patterns across various biological contexts.

Area of Science:

  • Molecular Biology
  • Genetics
  • Bioinformatics

Background:

  • DNA methylation, specifically 5-methylcytosine (5mC), is a crucial epigenetic modification in eukaryotes.
  • 5mC patterns are heritable and dynamic, influenced by development and environment, with significant implications in gene regulation and cancer.
  • Existing DNA methylation data is fragmented across various resolutions and experimental methods.

Purpose of the Study:

  • To create a unified, accessible database for diverse DNA methylation data.
  • To facilitate comprehensive analysis and comparison of methylation patterns.
  • To support research into gene silencing and cancer epigenetics.

Main Methods:

  • Development of a centralized database accessible via the WWW (http://www.methdb.de).

Related Experiment Videos

  • Integration of data including sample origin, experimental procedures, and detailed methylation status (nucleotide-level to total DNA).
  • Implementation of query masks for searching by species, tissue, gene, phenotype, and DNA type, with graphical and sequence-based output options.

    • Main Results:

    • A comprehensive resource unifying disparate DNA methylation datasets is now available.
    • The database allows detailed querying and retrieval of methylation information, including relative gene expression levels.
    • Data visualization includes graphical representations and sequence/table formats of methylation profiles.

    Conclusions:

    • The unified database provides a valuable common resource for researchers studying DNA methylation.
    • Facilitates deeper insights into epigenetic regulation, gene silencing, and the role of methylation in diseases like cancer.
    • Enables standardized analysis of diverse methylation data, advancing the field of epigenetics.