Evidence map›Paper›PMID 42392086›Full record

ArticleStem cell reports2026

Integration of the naive pluripotency gene network with the response to GSK3 inhibition by Tcf7l1-driven enhancer decommissioning.

Jieun Kwon, Jenny Y Zhang, Brian R Shy, Matthew S MacDougall, Eva H W Leung, Constantinos Chronis, Fotini Gounari, Bradley J Merrill

Abstract read
PubMed Full text at PMC Publisher
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

8 authors.

Jieun KwonDepartment of Biochemistry and Molecular Genetics, University of Illinois at Chicago, Chicago, IL, USA.
Jenny Y ZhangDepartment of Biochemistry and Molecular Genetics, University of Illinois at Chicago, Chicago, IL, USA.
Brian R ShyDepartment of Biochemistry and Molecular Genetics, University of Illinois at Chicago, Chicago, IL, USA.
Matthew S MacDougallDepartment of Biochemistry and Molecular Genetics, University of Illinois at Chicago, Chicago, IL, USA.
Eva H W LeungDepartment of Biochemistry and Molecular Genetics, University of Illinois at Chicago, Chicago, IL, USA.
Constantinos ChronisDepartment of Biochemistry and Molecular Genetics, University of Illinois at Chicago, Chicago, IL, USA.
Fotini GounariDepartment of Immunology, Mayo Clinic, Scottsdale, AZ, USA.
Bradley J MerrillDepartment of Biochemistry and Molecular Genetics, University of Illinois at Chicago, Chicago, IL, USA. Electronic address: merrillb@uic.edu.

Funding

Reprogramming Gene Regulatory Networks to a Hematopoietic Stem Cell StateR01HL170286 · NHLBI · UNIVERSITY OF ILLINOIS AT CHICAGO · PI Konstantinos Chronis · 2023 to 2026
$2.1M
Molecular functions of Tcf-1 in DP thymocytesR01AI147652 · NIAID · UNIVERSITY OF CHICAGO · PI GOUNARI, FOTINI · 2020 to 2024
$2.0M
Harnessing multiplexed Cas9 genome editing for sequential genetic manipulations and recording activities in cell lineagesR01GM139894 · NIGMS · UNIVERSITY OF ILLINOIS AT CHICAGO · PI MERRILL, BRADLEY J · 2021 to 2024
$1.2M
Elucidating the genetic determinants for exit out of pluripotency with a CRISPR-Cas9 genome-wide knockout screenF30HD090938 · NICHD · UNIVERSITY OF ILLINOIS AT CHICAGO · PI MACDOUGALL, MATTHEW STEVEN · 2017 to 2020
$192k
NHLBI NIH HHS R01 HL170286NIAID NIH HHS R01 AI147652NICHD NIH HHS F30 HD090938NIGMS NIH HHS R01 GM139894
6 · The paper itself

Abstract

The transition out of naive pluripotency requires the simultaneous dissolution of the naive gene regulatory network as well as a redirection of transcriptional response to WNT/β-CATENIN signaling. Here, we show that Tcf7l1 functions as a linchpin factor that connects the two outcomes via effects at TCF7L1-bound cis-regulatory elements in mouse pluripotent stem cells. A combination of gene knockout and inducible expression lines of ESCs was generated to experimentally isolate effects of Tcf/Lef factors on pluripotency. Naive cis-regulatory elements were specifically bound by and rapidly decommissioned by TCF7L1 upon releasing cells from GSK3 inhibition. These findings suggest that Tcf7l1-mediated enhancer decommissioning serves as a critical mechanism by which pluripotent cells rapidly alter the response to signaling pathways in preparation for gastrulation, and it may be a mechanism used in diverse cell types for modulating the effects of WNT/β-CATENIN signaling pathway in a cell-specific manner to stimulate a variety of cell fate decisions.

Indexed as

Enhancer Elements, GeneticGene Regulatory NetworksGlycogen Synthase Kinase 3Pluripotent Stem CellsTranscription Factor 7-Like 1 ProteinAnimalsbeta CateninCell DifferentiationMiceWnt Signaling Pathwaybeta CateninGlycogen Synthase Kinase 3Tcf7l1 protein, mouseTranscription Factor 7-Like 1 Proteinbeta-cateninCis regulatory elementdecommissioningembryonic Stem Cellnaive pluripotencyTcf7l1Tcf/LefWnt

Identifiers

PMID42392086
PMCPMC13385425

What Socratic holds

Textmetadata
LicenceCC BY-NC-ND
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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 Socratic graph.