Evidence map›Paper›PMID 40999097›Full record

ArticleNature methods2025

Single-cell multi-omic detection of DNA methylation and histone modifications reconstructs the dynamics of epigenomic maintenance.

Christoph Geisenberger, Jeroen van den Berg, Vincent van Batenburg, Buys de Barbanson, Anna Lyubimova, Joe Verity-Legg, Xiufei Chen, Yibin Liu, Chun-Xiao Song, Jeroen de Ridder and 1 more

Erratum issuedAbstract read
In one paragraph

Article in Nature methods, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 8 papers.

0numbers the graph read from it
0cells of the map it votes in
8citing 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

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

8 citing papers in PubMed.

  1. Article
  2. Review
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  7. Article
  8. Nuclear Dynamics and Its Timing Regulation Revealed by Live-Cell Imaging.Advances in experimental medicine and biology · 2026
    Review
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

11 authors.

Christoph Geisenberger *Hubrecht Institute-KNAW (Royal Netherlands Academy of Arts and Sciences), Utrecht, The Netherlands.
Jeroen van den Berg *Hubrecht Institute-KNAW (Royal Netherlands Academy of Arts and Sciences), Utrecht, The Netherlands. j.berg@hubrecht.eu.ORCID http://orcid.org/0000-0002-9430-7155
Vincent van BatenburgHubrecht Institute-KNAW (Royal Netherlands Academy of Arts and Sciences), Utrecht, The Netherlands.ORCID http://orcid.org/0000-0003-4203-9571
Buys de BarbansonHubrecht Institute-KNAW (Royal Netherlands Academy of Arts and Sciences), Utrecht, The Netherlands.ORCID http://orcid.org/0000-0002-6967-5757
Anna LyubimovaHubrecht Institute-KNAW (Royal Netherlands Academy of Arts and Sciences), Utrecht, The Netherlands.
Joe Verity-LeggHubrecht Institute-KNAW (Royal Netherlands Academy of Arts and Sciences), Utrecht, The Netherlands.ORCID http://orcid.org/0009-0000-7275-8302
Xiufei ChenDepartment of Central Laboratory, The First Affiliated Hospital of Ningbo University, Ningbo, China.
Yibin LiuState Key Laboratory of Metabolism and Regulation in Complex Organisms, College of Chemistry and Molecular Sciences, Taikang Center for Life and Medical Sciences, Wuhan University, Wuhan, China.ORCID http://orcid.org/0000-0003-3451-0212
Chun-Xiao SongLudwig Institute for Cancer Research, Nuffield Department of Medicine, University of Oxford, Oxford, UK.ORCID http://orcid.org/0000-0002-7781-6521
Jeroen de RidderHubrecht Institute-KNAW (Royal Netherlands Academy of Arts and Sciences), Utrecht, The Netherlands.ORCID http://orcid.org/0000-0002-0828-3477
Alexander van OudenaardenHubrecht Institute-KNAW (Royal Netherlands Academy of Arts and Sciences), Utrecht, The Netherlands. a.vanoudenaarden@hubrecht.eu.ORCID http://orcid.org/0000-0002-9442-3551

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

DNA methylation and histone modifications encode epigenetic information. Recently, major progress was made to measure either mark at a single-cell resolution; however, a method for simultaneous detection is lacking, preventing study of their interactions. Here, to bridge this gap, we developed scEpi

Indexed as

DNA MethylationEpigenesis, GeneticEpigenomicsHistone CodeHistonesSingle-Cell AnalysisAnimalsCell LineChromatinCpG IslandsHumansMiceMultiomicsChromatinHistones

Identifiers

PMID40999097
PMCPMC12510880

What OpenQuestion holds

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Registered trials

None linked

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.