Evidence map›Paper›PMID 40614729›Full record

ArticleStem cell reports2025

DDR1 regulates RUNX1-CBFβ to control breast stem cell differentiation.

Colin Trepicchio, Gat Rauner, Nicole Traugh, Ruohong Wang, Meadow Parrish, Daniel E C Fein, Youssof Mal, Piyush B Gupta, Stefano Monti, Charlotte Kuperwasser

Abstract read
In one paragraph

Article in Stem cell reports, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. Review
  2. Review
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

10 authors.

Colin TrepicchioDepartment of Developmental, Molecular & Chemical Biology, Tufts University School of Medicine, Boston, MA 02111, USA.
Gat RaunerDepartment of Developmental, Molecular & Chemical Biology, Tufts University School of Medicine, Boston, MA 02111, USA.
Nicole TraughDepartment of Developmental, Molecular & Chemical Biology, Tufts University School of Medicine, Boston, MA 02111, USA.
Ruohong WangBioinformatics Program, Faculty of Computing & Data Science, Boston University, Boston, MA 02215, USA.
Meadow ParrishDepartment of Developmental, Molecular & Chemical Biology, Tufts University School of Medicine, Boston, MA 02111, USA.
Daniel E C FeinDepartment of Developmental, Molecular & Chemical Biology, Tufts University School of Medicine, Boston, MA 02111, USA.
Youssof MalDepartment of Developmental, Molecular & Chemical Biology, Tufts University School of Medicine, Boston, MA 02111, USA.
Piyush B GuptaDepartment of Developmental, Molecular & Chemical Biology, Tufts University School of Medicine, Boston, MA 02111, USA; Laboratory for the Convergence of Biomedical, Physical, and Engineering Sciences, Tufts University School of Medicine, Boston, MA 02111, USA.
Stefano MontiBioinformatics Program, Faculty of Computing & Data Science, Boston University, Boston, MA 02215, USA; Section of Computational Biomedicine, Boston University Chobanian & Avedisian School of Medicine, Boston, MA 02118, USA; Department of Biostatistics, Boston University School of Public Health, Boston, MA 02118, USA.
Charlotte KuperwasserDepartment of Developmental, Molecular & Chemical Biology, Tufts University School of Medicine, Boston, MA 02111, USA; Laboratory for the Convergence of Biomedical, Physical, and Engineering Sciences, Tufts University School of Medicine, Boston, MA 02111, USA. Electronic address: charlotte.kuperwasser@tufts.edu.

Funding

Defining the signaling pathways that direct adult tissue stem cells to exit multipotencyR01GM124491 · NIGMS · WHITEHEAD INSTITUTE FOR BIOMEDICAL RES · PI GUPTA, PIYUSH · 2018 to 2022
$2.1M
Predoctoral Training in Bioinformatics and Computational BiologyT32GM150533 · NIGMS · BOSTON UNIVERSITY (CHARLES RIVER CAMPUS) · PI GARY E. BENSON, Daniel Segre · 2023 to 2026
$1.3M
NIGMS NIH HHS R01 GM124491NIGMS NIH HHS T32 GM150533
6 · The paper itself

Abstract

Understanding epithelial stem cell differentiation and morphogenesis during breast tissue development is essential, as disruption in these processes underlie breast cancer formation. We used a next-generation single-cell-derived organoid model to investigate how individual stem cells give rise to complex tissue. We show that discoidin domain receptor 1 (DDR1) inhibition traps cells in a bipotent state, blocking alveolar morphogenesis and luminal cell expansion, which is necessary for complex epithelium formation. Disrupting RUNX1 function produced nearly identical phenotypes, underscoring its critical role downstream of DDR1. Mechanistically, DDR1 affects the interaction and expression of RUNX1 and its cofactor core binding factor beta (CBFβ), thereby regulating its activity. Mutational analyses in breast cancer patients reveal frequent alterations in the DDR1-RUNX1 signaling axis, particularly co-occurring mutations. Together, these findings uncover DDR1-RUNX1 as a central signaling pathway driving breast epithelial differentiation, whose dysregulation may contribute fundamentally to breast cancer pathogenesis.

Indexed as

BreastCell DifferentiationCore Binding Factor Alpha 2 SubunitCore Binding Factor beta SubunitDiscoidin Domain Receptor 1Stem CellsAnimalsBreast NeoplasmsEpithelial CellsFemaleHumansMiceMutationOrganoidsSignal TransductionCore Binding Factor Alpha 2 SubunitCore Binding Factor beta SubunitDDR1 protein, humanDiscoidin Domain Receptor 1RUNX1 protein, human3D modeladult stem cellsdifferentiationhuman breasthydrogel modelorganogenesisorganoid modelorganoidsregenerationtissue development

Identifiers

PMID40614729
PMCPMC12365826

What OpenQuestion holds

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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.