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SEA: a super-enhancer archive.

Yanjun Wei1, Shumei Zhang1, Shipeng Shang1

  • 1College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China.

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Summary

Super-enhancers regulate cell identity genes. The Super-Enhancer Archive (SEA) database integrates super-enhancers across species, aiding research into gene regulation and cell development.

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Area of Science:

  • Genomics
  • Molecular Biology
  • Bioinformatics

Background:

  • Super-enhancers are critical regulatory elements driving cell identity gene expression.
  • Understanding super-enhancer function is vital for development and disease research.
  • A comprehensive genome-wide database is needed to study these elements.

Purpose of the Study:

  • To develop a web-accessible database, the Super-Enhancer Archive (SEA).
  • To integrate and annotate super-enhancers across multiple species and cell types.
  • To facilitate the study of super-enhancer roles in cell identity and disease.

Main Methods:

  • Computational and experimental identification of super-enhancers.
  • Integration of data from human, mouse, Drosophila melanogaster, and Caenorhabditis elegans.
  • Development of a web portal with multiple search functionalities and analytical tools.

Main Results:

  • SEA database release includes 83,996 super-enhancers from 134 cell types/tissues/diseases.
  • Data covers multiple species, including human, mouse, fruit fly, and nematode.
  • Detailed annotations include epigenetic data, TF binding, conservation, and gene expression.

Conclusions:

  • SEA provides a valuable resource for exploring super-enhancers and their regulatory roles.
  • The database supports in-depth analysis of cell identity and disease mechanisms.
  • SEA facilitates data extraction and exploration for researchers worldwide.