Evidence map›Paper›PMID 41372139›Full record

ArticleNature communications2025

Patient-derived colon epithelial organoids reveal lipid-related metabolic dysfunction in pediatric ulcerative colitis.

Babajide A Ojo, Ying Zhu, Lyong Heo, Sejal R Fox, Yanli Qiao, Amanda Waddell, Maria E Moreno-Fernandez, Marielle Gibson, Tracy Tran, Ashley L Dunn and 7 more

Abstract read
In one paragraph

Article in Nature communications, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.

0numbers the graph read from it
0cells of the map it votes in
11citing 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

11 citing papers in PubMed.

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4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

17 authors.

Babajide A OjoDivision of Pediatric Gastroenterology, Hepatology, and Nutrition, Stanford University School of Medicine, Stanford, CA, USA.
Ying ZhuDivision of Pediatric Gastroenterology, Hepatology, and Nutrition, Stanford University School of Medicine, Stanford, CA, USA.
Lyong HeoStanford Center for Genomics and Personalized Medicine, Stanford University, Palo Alto, CA, USA.
Sejal R FoxApplied Gene and Cell Therapy Center, Cincinnati Children's Hospital Medical Center, Cincinnati, OH, USA.
Yanli QiaoDivision of Pediatric Gastroenterology, Hepatology, and Nutrition, Stanford University School of Medicine, Stanford, CA, USA.
Amanda WaddellDepartment of Pediatrics, University of Cincinnati College of Medicine, Cincinnati, OH, USA.
Maria E Moreno-FernandezDepartment of Pediatrics, University of Cincinnati College of Medicine, Cincinnati, OH, USA.ORCID http://orcid.org/0000-0002-6593-7967
Marielle GibsonDivision of Pediatric Gastroenterology, Hepatology, and Nutrition, Stanford University School of Medicine, Stanford, CA, USA.
Tracy TranDivision of Pediatric Gastroenterology, Hepatology, and Nutrition, Stanford University School of Medicine, Stanford, CA, USA.
Ashley L DunnDivision of Pediatric Gastroenterology, Hepatology, and Nutrition, Stanford University School of Medicine, Stanford, CA, USA.
Essam I A ElknawyDivision of Pediatric Gastroenterology, Hepatology, and Nutrition, Stanford University School of Medicine, Stanford, CA, USA.
Neetu SainiDivision of Pediatric Hematology, Oncology, Stem Cell Transplantation and Regenerative Medicine, Stanford University School of Medicine, Palo Alto, CA, USA.
Javier A López-RiveraDivision of Pediatric Gastroenterology, Hepatology, and Nutrition, Stanford University School of Medicine, Stanford, CA, USA.
Senad DivanovicDepartment of Pediatrics, University of Cincinnati College of Medicine, Cincinnati, OH, USA.ORCID http://orcid.org/0000-0001-7538-0499
Yuqin DaiSarafan ChEM-H, Stanford University, Stanford, CA, USA.
Vinicio A de Jesus PerezDivision of Pulmonary and Critical Care Medicine, Department of Medicine, Stanford University, Stanford, CA, USA.ORCID http://orcid.org/0000-0001-5532-8247
Michael J RosenDivision of Pediatric Gastroenterology, Hepatology, and Nutrition, Stanford University School of Medicine, Stanford, CA, USA. rosenm@stanford.edu.ORCID http://orcid.org/0000-0002-5149-718X

Funding

Stanford Center for Clinical & Translational Education and Research (Spectrum)UL1TR003142 · NCATS · STANFORD UNIVERSITY · PI O'HARA, RUTH M · 2019 to 2023
$45.0M
Stanford Center for Clinical and Translational Research and EducationUM1TR004921 · NCATS · STANFORD UNIVERSITY · PI MANISHA DESAI, DEAN W FELSHER · 2024 to 2026
$30.1M
Stem Cell/Organoid and Genome Editing CoreP30DK078392 · NIDDK · CINCINNATI CHILDRENS HOSP MED CTR · PI Alexander Miethke · 2007 to 2026
$24.4M
The Wnt7a/ROR2 axis in the pathogenesis of pulmonary arterial hypertensionR01HL134776 · NHLBI · STANFORD UNIVERSITY · PI DE JESUS PEREZ, VINICIO A · 2017 to 2025
$5.0M
Endothelial-pericyte interactions in the pathogenesis of pulmonary arterial hypertensionR01HL139664 · NHLBI · STANFORD UNIVERSITY · PI DE JESUS PEREZ, VINICIO A · 2018 to 2025
$4.7M
Pericytes and postnatal alveolarization: Role of hypoxia inducible factorsR01HL160018 · NHLBI · STANFORD UNIVERSITY · PI ALVIRA, CRISTINA MARIA, CORNFIELD, DAVID N. · 2022 to 2025
$2.6M
The Role of the CES1 in the Pathogenesis of Pulmonary Arterial HypertensionR01HL172449 · NHLBI · STANFORD UNIVERSITY · PI VINICIO A DE JESUS PEREZ · 2024 to 2026
$1.6M
Epigenetic and functional determination of colon organoids as a patient-specific preclinical model of ulcerative colitisR21DK123691 · NIDDK · STANFORD UNIVERSITY · PI ROSEN, MICHAEL J · 2020 to 2021
$426k
Dysregulation of Epithelial Metabolism and Regeneration by Sulfite Exposure in Pediatric Ulcerative ColitisK99DK136971 · NIDDK · STANFORD UNIVERSITY · PI OJO, BABAJIDE · 2023 to 2024
$182k
NCATS NIH HHS UL1 TR003142NCATS NIH HHS UM1 TR004921NHLBI NIH HHS R01 HL134776NHLBI NIH HHS R01 HL139664NHLBI NIH HHS R01 HL160018NHLBI NIH HHS R01 HL172449NIDDK NIH HHS K99 DK136971NIDDK NIH HHS P30 DK078392NIDDK NIH HHS R21 DK123691U.S. Department of Health & Human Services | NIH | National Heart, Lung, and Blood Institute (NHLBI) R01HL139664, R01HL160018, R01HL134776, R01HL59886, 1R01HL172449-0U.S. Department of Health & Human Services | NIH | National Institute of Diabetes and Digestive and Kidney Diseases (National Institute of Diabetes & Digestive & Kidney Diseases) R01DKDK099222U.S. Department of Health & Human Services | NIH | National Institute of Diabetes and Digestive and Kidney Diseases (National Institute of Diabetes & Digestive & Kidney Diseases) R21DK123691
6 · The paper itself

Abstract

Ulcerative colitis (UC) is associated with epithelial metabolic derangements which exacerbate gut inflammation. Here, we develop colon organoid (colonoid) lines from pediatric patients with endoscopically active UC, inactive UC, and those without intestinal inflammation to interrogate functional metabolic differences in the colon epithelia. We demonstrate that active UC colonoids exhibit hypermetabolic features and cellular stress, specifically during differentiation. Hypermetabolism in active UC colonoids is driven, in part, by increased proton leak, and excess lipid accumulation. Active UC colonoids exhibit heightened activation of the master lipid regulator PPAR-α and its transcriptional pathways. Pharmacological PPAR-α inhibition limits lipid accumulation, induces a metabolic shift towards glucose utilization, suppresses hypermetabolism, and reduces chemokine secretion and cellular stress markers. Collectively, our findings identify lipid-related metabolic dysfunction as a key pathologic feature of the pediatric UC epithelium and highlight the potential of patient-derived colonoids as a preclinical model for evaluating epithelial-targeted therapies addressing this dysfunction.

Indexed as

Colitis, UlcerativeColonIntestinal MucosaLipid MetabolismOrganoidsAdolescentChildFemaleGlucoseHumansMaleGlucose

Identifiers

PMID41372139
PMCPMC12695892

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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.