Evidence map›Paper›PMID 40328997›Full record

ArticleNature immunology2025

Immune-epithelial-stromal networks define the cellular ecosystem of the small intestine in celiac disease.

Michael E B FitzPatrick, Agne Antanaviciute, Melanie Dunstan, Karolina Künnapuu, Dominik Trzupek, Nicholas M Provine, Kyla Dooley, Jia-Yuan Zhang, Sophie L Irwin, Lucy C Garner and 16 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Nature immunology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.

0numbers the graph read from it
0cells of the map it votes in
13citing 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

13 citing papers in PubMed.

  1. Gliadin-specific CD4Science advances · 2026
    Article
  2. Article
  3. Article
  4. Review
  5. Article
  6. Review
  7. Review
  8. T cell receptors for antigen on intraepithelial cytolytic T lymphocytes in celiac disease engage enterocyte HLA-E and HLA-B.Proceedings of the National Academy of Sciences of the United States of America · 2026
    Article
  9. Review
  10. Review
  11. IFN-γ is a direct driver of crypt hyperplasia in celiac disease.The Journal of clinical investigation · 2025
    Article
  12. Article
  13. Article
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

26 authors.

Michael E B FitzPatrick *Translational Gastroenterology and Liver Unit, Nuffield Department of Medicine, University of Oxford, John Radcliffe Hospital, Oxford, UK. michael.fitzpatrick@ndm.ox.ac.uk.ORCID http://orcid.org/0000-0003-2365-2012
Agne Antanaviciute *MRC Translational Immune Discovery Unit, Weatherall Institute of Molecular Medicine, John Radcliffe Hospital, Oxford, UK.
Melanie DunstanTranslational Gastroenterology and Liver Unit, Nuffield Department of Medicine, University of Oxford, John Radcliffe Hospital, Oxford, UK.
Karolina KünnapuuTranslational Gastroenterology and Liver Unit, Nuffield Department of Medicine, University of Oxford, John Radcliffe Hospital, Oxford, UK.ORCID http://orcid.org/0000-0003-1267-0194
Dominik TrzupekCentre for Human Genetics, Nuffield Department of Medicine, NIHR Biomedical Research Centres, University of Oxford, Oxford, UK.
Nicholas M ProvineTranslational Gastroenterology and Liver Unit, Nuffield Department of Medicine, University of Oxford, John Radcliffe Hospital, Oxford, UK.ORCID http://orcid.org/0000-0002-9694-2216
Kyla DooleyCentre for Human Genetics, Nuffield Department of Medicine, NIHR Biomedical Research Centres, University of Oxford, Oxford, UK.
Jia-Yuan ZhangMRC WIMM Centre for Computational Biology, Weatherall Institute of Molecular Medicine, John Radcliffe Hospital, Oxford, UK.
Sophie L IrwinDivision of Infectious Diseases, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA, USA.
Lucy C GarnerTranslational Gastroenterology and Liver Unit, Nuffield Department of Medicine, University of Oxford, John Radcliffe Hospital, Oxford, UK.ORCID http://orcid.org/0000-0002-6461-252X
Jane I PernesCentre for Human Genetics, Nuffield Department of Medicine, NIHR Biomedical Research Centres, University of Oxford, Oxford, UK.
Ricardo C FerreiraCentre for Human Genetics, Nuffield Department of Medicine, NIHR Biomedical Research Centres, University of Oxford, Oxford, UK.ORCID http://orcid.org/0000-0001-5733-3285
Sarah C SassonKirby Institute, University of New South Wales, Sydney, New South Wales, Australia.ORCID http://orcid.org/0000-0002-5329-9072
Dominik AschenbrennerImmunology Disease Area, Novartis BioMedical Research, Basel, Switzerland.ORCID http://orcid.org/0000-0001-7580-2567
Devika AgarwalKennedy Institute of Rheumatology, University of Oxford, Oxford, UK.
Astor RodriguesUniversity Children's Hospital, John Radcliffe Hospital, Oxford, UK.
Lucy HowarthUniversity Children's Hospital, John Radcliffe Hospital, Oxford, UK.
Oliver BrainTranslational Gastroenterology and Liver Unit, Nuffield Department of Medicine, University of Oxford, John Radcliffe Hospital, Oxford, UK.
Darren RuaneJanssen Research & Development, Immunology Translational Sciences and Medicine, La Jolla, CA, USA.
Elizabeth SoilleuxDepartment of Pathology, University of Cambridge, Cambridge, UK.ORCID http://orcid.org/0000-0002-4032-7249
Sarah A TeichmannWellcome Sanger Institute, University of Cambridge, Cambridge, UK.ORCID http://orcid.org/0000-0002-6294-6366
Calliope A DendrouCentre for Human Genetics, Nuffield Department of Medicine, NIHR Biomedical Research Centres, University of Oxford, Oxford, UK.ORCID http://orcid.org/0000-0003-1179-4021
Alison SimmonsTranslational Gastroenterology and Liver Unit, Nuffield Department of Medicine, University of Oxford, John Radcliffe Hospital, Oxford, UK.
Holm H UhligTranslational Gastroenterology and Liver Unit, Nuffield Department of Medicine, University of Oxford, John Radcliffe Hospital, Oxford, UK.ORCID http://orcid.org/0000-0002-6111-7355
John A ToddCentre for Human Genetics, Nuffield Department of Medicine, NIHR Biomedical Research Centres, University of Oxford, Oxford, UK.
Paul KlenermanTranslational Gastroenterology and Liver Unit, Nuffield Department of Medicine, University of Oxford, John Radcliffe Hospital, Oxford, UK.ORCID http://orcid.org/0000-0003-4307-9161

Funding

Wellcome TrustWellcome Trust (Wellcome) WSSS 211276/Z/18/Z & 218597/Z/19/ZWellcome Trust (Wellcome) WSSS 211276/Z/18/Z & 218597/Z/19/Z)Wellcome Trust (Wellcome) WSSS 211276/Z/18/Z & 218597/Z/19/Z, 222426/Z/21/Z)
6 · The paper itself

Abstract

The immune-epithelial-stromal interactions underpinning intestinal damage in celiac disease (CD) are incompletely understood. To address this, we performed single-cell transcriptomics (RNA sequencing; 86,442 immune, parenchymal and epithelial cells; 35 participants) and spatial transcriptomics (20 participants) on CD intestinal biopsy samples. Here we show that in CD, epithelial populations shifted toward a progenitor state, with interferon-driven transcriptional responses, and perturbation of secretory and enteroendocrine populations. Mucosal T cells showed numeric and functional changes in regulatory and follicular helper-like CD4

Indexed as

Celiac DiseaseEpithelial CellsIntestinal MucosaIntestine, SmallStromal CellsAdultFemaleGene Expression ProfilingHumansMaleMiddle AgedSingle-Cell AnalysisT-Lymphocyte SubsetsTranscriptome

Identifiers

PMID40328997
PMCPMC12133578

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.