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

Markus Lindén, Sebastian I Zúñiga Norman, Tommi Välikangas, Sini Junttila, Tomi Suomi, Kalle T Rytkönen, Laura L Elo

Abstract read

In one paragraph

Article in Bioinformatics (Oxford, England), 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it

0cells of the map it votes in

0citing papers in PubMed

–field-weighted citation impact

1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

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3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

7 authors.

Markus LindénTurku Bioscience Centre, University of Turku and Åbo Akademi University, FI-20520 Turku, Finland.

Sebastian I Zúñiga NormanTurku Bioscience Centre, University of Turku and Åbo Akademi University, FI-20520 Turku, Finland.

Tommi VälikangasTurku Bioscience Centre, University of Turku and Åbo Akademi University, FI-20520 Turku, Finland.

Sini JunttilaTurku Bioscience Centre, University of Turku and Åbo Akademi University, FI-20520 Turku, Finland.

Tomi SuomiTurku Bioscience Centre, University of Turku and Åbo Akademi University, FI-20520 Turku, Finland.ORCID 0000-0003-3639-979X

Kalle T RytkönenTurku Bioscience Centre, University of Turku and Åbo Akademi University, FI-20520 Turku, Finland.ORCID 0000-0002-5138-0889

Laura L EloTurku Bioscience Centre, University of Turku and Åbo Akademi University, FI-20520 Turku, Finland.ORCID 0000-0001-5648-4532

Funding

Biocenter Finland, and ELIXIR FinlandCancer Foundation FinlandEemil Aaltonen FoundationFinnish Cultural FoundationInFLAMES and DRDPPäivikki and Sakari Sohlberg FoundationResearch Council of Finland 310561Research Council of Finland 329278Research Council of Finland 335434Research Council of Finland 335611Research Council of Finland 341342Research Council of Finland 364700Sigrid Juselius FoundationVilho, Yrjö and Kalle Väisälä FoundationYrjö Jahnsson Foundation

6 · The paper itself

Abstract

summaryWe introduce REACTOR, a computational tool designed to detect differential activity of transcriptional regulators and their target genes (regulons) in single-cell RNA-sequencing data. It expands the currently available framework for regulon analysis by introducing a robust statistical test to detect differential regulon activity between conditions, such as disease versus control, with multiple replicates. By contrasting different conditions, REACTOR enables identification of key condition- and cell type-specific regulons. To demonstrate the use of REACTOR, we illustrate its performance in a publicly available COVID-19 dataset. AVAILABILITY: REACTOR R-package together with an implementation vignette are available at https://www.github.com/elolab/REACTOR.

Indexed as

Computational BiologyGene Expression ProfilingRegulonSingle-Cell AnalysisSoftwareTranscriptomeCOVID-19HumansSequence Analysis, RNASingle-Cell Gene Expression Analysis

Identifiers

PMID42082398

DOI10.1093/bioinformatics/btag203

PMCPMC13218382

What OpenQuestion holds

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LicenceCC BY

Read underepoch 390

Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.