Evidence map›Paper›PMID 41720083›Full record

ArticleStem cell reports2026

Post-replicative chromatin accessibility predicts cell fate change.

Teresa E Knudsen, Nazaret Reverón-Gómez, Alva Biran, Nicolas Alcaraz, Sihem Cheloufi, Konrad Hochedlinger, Joshua M Brickman, Anja Groth, Kathleen R Stewart-Morgan

Abstract read
In one paragraph

Article in Stem cell reports, 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

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

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

9 authors.

Teresa E KnudsenThe Novo Nordisk Foundation Center for Stem Cell Medicine (reNEW), University of Copenhagen, Copenhagen, Denmark; Niels Bohr Institute, University of Copenhagen, Copenhagen, Denmark.
Nazaret Reverón-GómezCenter for Epigenetic Cell Memory, Danish Cancer Institute, Danish Cancer Society, Copenhagen, Denmark; Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Copenhagen, Denmark; Department of Cellular and Molecular Medicine, University of Copenhagen, Copenhagen, Denmark.
Alva BiranCenter for Epigenetic Cell Memory, Danish Cancer Institute, Danish Cancer Society, Copenhagen, Denmark; Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Copenhagen, Denmark; Department of Cellular and Molecular Medicine, University of Copenhagen, Copenhagen, Denmark.
Nicolas AlcarazCenter for Epigenetic Cell Memory, Danish Cancer Institute, Danish Cancer Society, Copenhagen, Denmark; Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Copenhagen, Denmark; Department of Cellular and Molecular Medicine, University of Copenhagen, Copenhagen, Denmark.
Sihem CheloufiDepartment of Biochemistry, University of California, Riverside, 3401 Watkins Drive, Boyce Hall, Riverside, CA 92521, USA; Stem Cell Center, University of California, Riverside, 900 University Avenue, Riverside, CA 92521, USA; RNA Center, University of California, Riverside, 900 University Avenue, Riverside, CA 92521, USA.
Konrad HochedlingerDepartment of Molecular Biology, Massachusetts General Hospital and Department of Genetics, Harvard Medical School, Boston, MA 02114, USA.
Joshua M BrickmanThe Novo Nordisk Foundation Center for Stem Cell Medicine (reNEW), University of Copenhagen, Copenhagen, Denmark. Electronic address: joshua.brickman@sund.ku.dk.
Anja GrothCenter for Epigenetic Cell Memory, Danish Cancer Institute, Danish Cancer Society, Copenhagen, Denmark; Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Copenhagen, Denmark; Department of Cellular and Molecular Medicine, University of Copenhagen, Copenhagen, Denmark; Biotech Research and Innovation Centre, University of Copenhagen, Copenhagen, Denmark. Electronic address: anja.groth@cpr.ku.dk.
Kathleen R Stewart-MorganDepartment of Cellular and Molecular Medicine, University of Copenhagen, Copenhagen, Denmark. Electronic address: kathleen@sund.ku.dk.

Funding

Investigating the Regulatory Roles of Histone Chaperones in Cellular PlasticityR35GM151004 · NIGMS · UNIVERSITY OF CALIFORNIA RIVERSIDE · PI Sihem Cheloufi · 2023 to 2026
$1.6M
NIGMS NIH HHS R35 GM151004
6 · The paper itself

Abstract

It has long been hypothesized that DNA replication is important in reconfiguring the chromatin landscape during cell identity changes in development, disease, and reprogramming. There is now a large body of work showing that DNA replication indeed alters chromatin structure and composition, but a function for these changes has remained elusive. Using replication-coupled ATAC-seq in differentiating embryonic stem cells and reprogramming mouse embryonic fibroblasts, we profiled replicated and unreplicated chromatin and observed de novo chromatin opening specifically in the replicated fraction. These opening events created an accessibility landscape similar to that seen in later time points, and binding of lineage-specific transcription factors was enriched in these regions. Opening of these regions was impaired when replication was inhibited during early reprogramming. This work bridges the gap between replication-induced structural chromatin changes and functional consequences by demonstrating that replication facilitates a "window of opportunity" that advances the chromatin landscape during cell identity change.

Indexed as

Cell DifferentiationCell LineageChromatinDNA ReplicationAnimalsCellular ReprogrammingFibroblastsMiceMouse Embryonic Stem CellsTranscription FactorsChromatinTranscription Factorscell fate changechromatin accessibilitydifferentiationDNA replicationrepli-ATAC-seqreprogrammingtranscription factor binding

Identifiers

PMID41720083
PMCPMC12985388

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
Read underepoch 390

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.