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The Encyclopedia of DNA elements (ENCODE): data portal update.

Carrie A Davis1, Benjamin C Hitz1, Cricket A Sloan1

  • 1Department of Genetics, Stanford University, Stanford, CA 94305-5120, USA.

Nucleic Acids Research
|November 11, 2017
PubMed
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This summary is machine-generated.

The ENCODE Portal provides public access to DNA elements data and metadata. Regular updates enhance data accessibility, visualization tools, and integrate related epigenomic and model organism projects.

Area of Science:

  • Genomics
  • Bioinformatics
  • Epigenetics

Background:

  • The Encyclopedia of DNA Elements (ENCODE) Consortium generates vast amounts of functional genomics data.
  • Public accessibility and clear data provenance are crucial for scientific reproducibility and discovery.
  • Existing data portals required updates to better serve the scientific community.

Purpose of the Study:

  • To report on updates to the ENCODE Portal database and website.
  • To improve public access to ENCODE data, metadata, and experimental protocols.
  • To integrate data from related epigenomic and model organism projects.

Main Methods:

  • Developing a coherent, web-based search and download interface.
  • Curating comprehensive metadata to record data provenance and biological interpretation.

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  • Regularly updating the portal based on community feedback and new experimental results.

    • Main Results:

    • The ENCODE Portal now offers over 13,000 datasets with accompanying metadata.
    • New visualization tools and uniformly-processed data from related projects are available.
    • The portal integrates data from Genomics of Gene Regulation, Roadmap Epigenome Project, modENCODE, and modERN.

    Conclusions:

    • The updated ENCODE Portal enhances accessibility and utility of functional genomics data.
    • The portal serves as a central resource for ENCODE and related project data.
    • Continued development ensures the portal remains a valuable tool for the scientific community.