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Rediscovering publicly available single-cell data with the DISCO platform.

Mengwei Li1, Kok Siong Ang1, Brian Teo2

  • 1Bioinformatics Institute (BII), Agency for Science, Technology and Research (A*STAR), Singapore.

Nucleic Acids Research
|November 13, 2024
PubMed
Summary

The DISCO database now integrates over 100 million cells from human single-cell RNA sequencing (scRNA-seq) studies. This enhanced resource offers tools for comprehensive data analysis and custom atlas construction.

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Area of Science:

  • Immunology
  • Genomics
  • Bioinformatics

Background:

  • Single-cell RNA sequencing (scRNA-seq) is crucial for understanding cellular transcriptomics.
  • The DISCO database previously integrated human scRNA-seq data.
  • There is a need for larger, more comprehensive scRNA-seq data resources.

Purpose of the Study:

  • To present an enhanced version of the DISCO database.
  • To expand the database significantly and improve its analytical capabilities.
  • To provide tools for integrated analysis and custom atlas generation.

Main Methods:

  • Integration of over 100 million cells from >17,000 human scRNA-seq samples.
  • Uniform realignment of read count tables and curation of metadata.
  • Development of harmonized cell type annotations and a knowledgebase of cell type ontologies and gene signatures.

Main Results:

  • The enhanced DISCO database now contains >100 million cells.
  • It offers uniformly processed data, curated metadata, and harmonized annotations.
  • Integrated tissue and phenotype-specific atlases are provided.
  • A knowledgebase of cell type ontology and gene signatures is included.
  • Tools for data retrieval, integration, annotation, and mapping are available.

Conclusions:

  • The enhanced DISCO database is a valuable resource for single-cell transcriptomics research.
  • It facilitates the construction of customized atlases and integrated data analysis.
  • The accompanying R package enables offline analysis, broadening accessibility.