Evidence map›Paper›PMID 38014192›Full record

ArticlemedRxiv : the preprint server for health sciences2025

Multiomic analysis reveals cellular, transcriptomic and epigenetic changes in intestinal pouches of ulcerative colitis patients.

Yu Zhao, Ran Zhou, Bingqing Xie, Cambrian Y Liu, Martin Kalski, Candace M Cham, Zhiwei Jiang, Jason Koval, Christopher R Weber, David T Rubin and 9 more

Open access · greenAbstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in medRxiv : the preprint server for health sciences, 2025. 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, 5 citations in OpenAlex.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

19 authors at 2 institutions in 1 country.

Yu ZhaoUniversity of Chicago, Pritzker School of Molecular Engineering, Chicago, IL, USA.ORCID 0000-0002-2479-8438
Ran ZhouUniversity of Chicago, Department of Medicine, Chicago, IL, USA.
Bingqing XieUniversity of Chicago, Department of Medicine, Chicago, IL, USA.
Cambrian Y LiuUniversity of Chicago, Department of Medicine, Chicago, IL, USA.
Martin KalskiUniversity of Chicago, Department of Medicine, Chicago, IL, USA.
Candace M ChamUniversity of Chicago, Department of Medicine, Chicago, IL, USA.
Zhiwei JiangUniversity of Chicago, Department of Chemistry, Chicago, IL, USA.
Jason KovalUniversity of Chicago, Department of Medicine, Chicago, IL, USA.
Christopher R WeberUniversity of Chicago, Department of Pathology, Chicago, IL, USA.
David T RubinUniversity of Chicago, Department of Medicine, Chicago, IL, USA.
Mitch SoginMarine Biological Laboratory, Woods Hole, MA, USA.
Sean CrossonMichigan State University, East Lansing, MI, USA.ORCID 0000-0002-1727-322X
Mengjie ChenUniversity of Chicago, Department of Medicine, Chicago, IL, USA.
Jun HuangUniversity of Chicago, Pritzker School of Molecular Engineering, Chicago, IL, USA.
Aretha FiebigMichigan State University, East Lansing, MI, USA.
Sushila DalalUniversity of Chicago, Department of Medicine, Chicago, IL, USA.
Eugene B ChangUniversity of Chicago, Department of Medicine, Chicago, IL, USA.
Anindita BasuUniversity of Chicago, Department of Medicine, Chicago, IL, USA.
Sebastian PottUniversity of Chicago, Department of Medicine, Chicago, IL, USA.ORCID 0000-0002-4118-6150
University of Chicago · USMarine Biological Laboratory · US

Funding

ULTRASTRUCTURE AND CYTOMORPHOLOGY COREP30DK042086 · NIDDK · UNIVERSITY OF CHICAGO · PI CHANG, EUGENE B · 1990 to 2025
$29.8M
Research Training in Digestive Health, Diseases, and NutritionT32DK007074 · NIDDK · UNIVERSITY OF CHICAGO · PI EUGENE B CHANG · 1986 to 2026
$11.3M
Host and microbial basis of human ulcerative colitis and pouchitis: Identification, role, mechanisms, and resource development of host susceptibility and pathobiont factorsRC2DK122394 · NIDDK · UNIVERSITY OF CHICAGO · PI CHANG, EUGENE B · 2019 to 2023
$10.2M
Probing short and long term consequences of Small and Large Bowel Microbiota Transplants on Host Physiology: Implications for the development of future live biotherapeuticsR01DK138072 · NIDDK · UNIVERSITY OF CHICAGO · PI EUGENE B CHANG, Kristina Brooke Martinez-Guryn · 2024 to 2026
$2.1M
Mechanisms and determinants of dynamic gene regulation during development and cellular differentiationR35GM142986 · NIGMS · UNIVERSITY OF CHICAGO · PI POTT, SEBASTIAN · 2021 to 2025
$2.0M
NIDDK NIH HHS P30 DK042086NIDDK NIH HHS R01 DK138072NIDDK NIH HHS RC2 DK122394NIDDK NIH HHS T32 DK007074NIGMS NIH HHS R35 GM142986
6 · The paper itself

Abstract

Total proctocolectomy with ileal pouch anal anastomosis is the standard of care for patients with severe ulcerative colitis. We generated a cell-type-resolved transcriptional and epigenetic atlas of ileal pouches using scRNA-seq and scATAC-seq data from paired biopsy samples of the ileal pouch and the ileal segment above the pouch (pre-pouch) from patients (male=4, female=2), and paired biopsies of the terminal ileum and ascending colon from healthy individuals (male=3, female=3) serving as reference. Our study finds previously uncharacterized populations of absorptive and secretory epithelial cells within the pouch but not the pre-pouch. These pouch-specific enterocytes express a subset of colon-specific genes, including

Identifiers

PMID38014192
PMCPMC10680893
OpenAlexW4388647923

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.