Evidence map›Paper›PMID 40383833›Full record

ArticleNature communications2025

Single-cell transcriptomic characterization of microscopic colitis.

Stefan Halvorsen, Molly Thomas, Mari Mino-Kenudson, Yuko Kinowaki, Kristin E Burke, David Morgan, Kaia C Miller, Katherine M Williams, Jenny Gurung, Jessica McGoldrick and 13 more

Abstract read
PubMed Full text at PMC Publisher
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 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. Article
  2. Article
  3. 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

23 authors.

Stefan Halvorsen *Center for Computational and Integrative Biology, Massachusetts General Hospital (MGH), Boston, MA, USA.
Molly Thomas *Center for Immunology and Inflammatory Diseases, Department of Medicine, MGH, Boston, MA, USA.ORCID http://orcid.org/0000-0002-1393-6559
Mari Mino-KenudsonHarvard Medical School (HMS), Boston, MA, USA.ORCID http://orcid.org/0000-0002-9092-2265
Yuko KinowakiDepartment of Pathology, HMS, MGH, Boston, MA, USA.
Kristin E BurkeDivision of Gastroenterology, Department of Medicine, MGH, Boston, MA, USA.
David MorganClinical and Translational Epidemiology Unit, MGH, Boston, MA, USA.
Kaia C MillerClinical and Translational Epidemiology Unit, MGH, Boston, MA, USA.ORCID http://orcid.org/0000-0002-3647-7287
Katherine M WilliamsClinical and Translational Epidemiology Unit, MGH, Boston, MA, USA.
Jenny GurungClinical and Translational Epidemiology Unit, MGH, Boston, MA, USA.
Jessica McGoldrickClinical and Translational Epidemiology Unit, MGH, Boston, MA, USA.
Megan HoptonCenter for Computational and Integrative Biology, Massachusetts General Hospital (MGH), Boston, MA, USA.
Brooke HoppeCenter for Computational and Integrative Biology, Massachusetts General Hospital (MGH), Boston, MA, USA.
Nandini SamantaCenter for Immunology and Inflammatory Diseases, Department of Medicine, MGH, Boston, MA, USA.
Sidney MartinCenter for Immunology and Inflammatory Diseases, Department of Medicine, MGH, Boston, MA, USA.
Alice TirardCenter for Immunology and Inflammatory Diseases, Department of Medicine, MGH, Boston, MA, USA.
Benjamin Y ArnoldCenter for Immunology and Inflammatory Diseases, Department of Medicine, MGH, Boston, MA, USA.
Jessica TantivitCenter for Immunology and Inflammatory Diseases, Department of Medicine, MGH, Boston, MA, USA.
Joseph YarzeDivision of Gastroenterology, Department of Medicine, MGH, Boston, MA, USA.
Kyle StallerDivision of Gastroenterology, Department of Medicine, MGH, Boston, MA, USA.
Daniel C ChungDivision of Gastroenterology, Department of Medicine, MGH, Boston, MA, USA.
Alexandra-Chloé VillaniCenter for Immunology and Inflammatory Diseases, Department of Medicine, MGH, Boston, MA, USA.ORCID http://orcid.org/0000-0001-7461-0408
Slim SassiCenter for Computational and Integrative Biology, Massachusetts General Hospital (MGH), Boston, MA, USA.
Hamed KhaliliBroad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, USA. hkhalili@mgh.harvard.edu.ORCID http://orcid.org/0000-0002-7956-6941

Funding

Deciphering the Achilles Heel of Cancer ImmunotherapyDP2CA247831 · NCI · MASSACHUSETTS GENERAL HOSPITAL · PI VILLANI, ALEXANDRA-CHLOE · 2019 to 2019
$2.5M
Unraveling the Role of PD-1 in CD8+ Tissue-Resident Memory T Cell Homeostasis and Epithelial Damage in Human ColitisK08DK127246 · NIDDK · OREGON HEALTH & SCIENCE UNIVERSITY · PI Molly Thomas · 2022 to 2026
$864k
NCI NIH HHS DP2 CA247831NIDDK NIH HHS K08 DK127246U.S. Department of Health & Human Services | National Institutes of Health (NIH) DP2CA247831
6 · The paper itself

Abstract

Microscopic colitis (MC) is a chronic inflammatory disease of the large intestine and a common cause of chronic diarrhea in older adults. Here, we use single-cell RNA sequencing analysis of colonic mucosal tissue to build a cellular and molecular model for MC. Our results show that in MC, there is a substantial expansion of tissue CD8

Indexed as

Colitis, MicroscopicTranscriptomeAnimalsCD4-Positive T-LymphocytesCD8-Positive T-LymphocytesColonFemaleGene Expression ProfilingHumansInterleukin-10Intestinal MucosaMaleMiceMice, Inbred C57BLSingle-Cell AnalysisT-Lymphocytes, RegulatoryInterleukin-10

Identifiers

PMID40383833
PMCPMC12086216

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.