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Following a change to our organizational structure effective April 1, 2026, this division has been renamed from the "Database Center for Life Science, Joint Support-Center for Data Science Research" to the "Database Division for Life Science (DBCLS), BioData Science Initiative (BSI), National Institute of Genetics (NIG)". Where the former name still appears in the guidelines, please read it as the new name.

Research ID

hum0454-v1Release info

Latest

Research title

Etiological and therapeutic response analysis of inflammatory bowel disease focusing on immune abnormalities

Research overview

Aims
Crohn's disease is one of inflammatory bowel diseases with unknown etiology, however dysfunction of lymphatic vessels has been reported to be associated with its etiology. Whereas, epithelioid cell granuloma is often found in lymphatic vessel and it is suggested that granulomas in lymphatic vessels are responsible for the impaired lymphatic flow in Crohn's disease. As described above, granulomas in lymphatic vessels are important immunological structures in the pathogenesis of Crohn's disease, but little is known about its characteristics. In this study, we will clarify the characteristics of intra- and extra- lymphatic granulomas and examine the correlation between intra- and extra- lymphatic granulomas and clinicopathological findings of Crohn's disease. We analyzed changes in the immune response in Crohn's disease after administering biologics as well.
Methods
Formalin-fixed paraffin-embedded specimens (FFPE) was thin sliced with 5 µm thickness and mounted on slides for Xenium analysis, 4 cases per slide. 50 custom molecules were added to the 377 molecules in the multi tissue panel for Xenium analysis.
Participants/materials
FFPE of Crohn's disease surgery cases, 10 cases. As controls, 6 cases of FFPE from ulcerative colitis, cytomegalovirus enteritis, and cancer were used.
URL
N/A

Datasets

CartDataset IDType of dataAnalysis methodAccess criteriaDate published
JGAD000830Xenium In Situ Gene Expression
  • Xenium 空間トランスクリプトーム
Controlled-access (Type I)2024-12-12

Data provider

Principal investigator
Makoto Kodama
Affiliation
Department of Pathology, Tokyo Yamate Medical Center

Research projects

No research projects.

Grants

NameTitleProject number
KAKENHI Grant-in-Aid for Transformative Research Areas
Platform for Advanced Genome Sciences
  • 22H04925

Related publications

TitleDOIDataset ID
Tertiary lymphoid structure as a therapeutic target of Crohn's disease: modulation by TNFα blockade

Controlled access users

Principal investigatorAffiliationCountry/RegionResearch titlePeriod of data useDataset ID
Hiroyuki HosokawaExploratory Research Department, EA Pharma Co., Ltd.JapanCharacterization of Granulomas in Lymphatic Vessels in Crohn's Disease2025-11-17 – 2026-04-02