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REACTOR: REgulon Activity analysis and Comparison Tool for single-cell transcriptOmics Research.

Markus Lindén1, Sebastián I Zúñiga Norman1, Tommi Välikangas1

  • 1Turku Bioscience Centre, University of Turku and Åbo Akademi University, FI-20520 Turku, Finland.

Bioinformatics (Oxford, England)
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Summary
This summary is machine-generated.

REACTOR is a new computational tool for analyzing single-cell RNA sequencing data. It identifies differential activity in transcriptional regulators and their target genes (regulons) between different conditions, like disease versus control.

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Area of Science:

  • Computational Biology
  • Genomics
  • Transcriptomics

Background:

  • Single-cell RNA sequencing (scRNA-seq) enables high-resolution analysis of cellular heterogeneity.
  • Understanding differential gene activity across conditions is crucial for biological discovery.
  • Existing frameworks for regulon analysis require enhancement for robust statistical comparison.

Purpose of the Study:

  • Introduce REACTOR, a novel computational tool for differential regulon activity detection.
  • Provide a robust statistical method for comparing regulon activity between conditions in scRNA-seq data.
  • Facilitate the identification of condition- and cell type-specific regulatory networks.

Main Methods:

  • Development of the REACTOR R-package.
  • Implementation of a robust statistical test for differential regulon activity.
  • Application and validation using a publicly available COVID-19 scRNA-seq dataset.

Main Results:

  • REACTOR successfully detects differential activity of transcriptional regulators and their target genes (regulons).
  • The tool enables robust statistical comparison of regulon activity across multiple replicates and conditions.
  • Identification of key condition- and cell type-specific regulons was demonstrated.

Conclusions:

  • REACTOR enhances the framework for regulon analysis in scRNA-seq data.
  • The tool provides a powerful method for identifying condition-specific regulatory changes.
  • REACTOR's utility is demonstrated in a relevant biological context (COVID-19).