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PEPhub: a database, web interface, and API for editing, sharing, and validating biological sample metadata.

Nathan J LeRoy1,2, Oleksandr Khoroshevskyi1, Aaron O'Brien1

  • 1Center for Public Health Genomics, School of Medicine, University of Virginia, 22908, Charlottesville VA.

Biorxiv : the Preprint Server for Biology
|August 30, 2023
PubMed
Summary
This summary is machine-generated.

PEPhub enhances biological data sharing and interoperability by focusing on metadata. This platform offers a user-friendly way to find and share biological research data through advanced search capabilities.

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Area of Science:

  • Bioinformatics
  • Data Science
  • Genomics

Background:

  • Increasing biological data necessitates improved infrastructure for sharing and interoperability.
  • Metadata sharing is crucial for broader data accessibility and has a wider scope than data sharing alone.

Approach:

  • Introduced PEPhub, a novel approach to enhance biological metadata sharing and interoperability.
  • PEPhub offers an API, natural language search, and a web-based interface for managing sample metadata tables.

Key Points:

  • Processed over 100,000 published biological research projects.
  • Indexed projects with fast, semantic natural language search.
  • Facilitates efficient discovery and sharing of biological research data.

Conclusions:

  • PEPhub provides a fast and user-friendly solution for accessing and contributing to biological metadata.
  • Improves the overall landscape of biological data sharing and research reproducibility.