Research ID
hum0468-v1Release info
Latest
Research title
Analysis of immune and inflammatory pathology
Research overview
- Aims
- The detailed characteristics of the cells present in the local tissues of affected organs are not well understood. Recent advances in analytical techniques have made it possible to analyze cells in human specimens in detail. These analyses have shown, for example, that the gene expression of immune cells in peripheral blood differs from that in tissues, and the importance of analyzing cells in diseased tissues has become clear. This study aims to elucidate the pathophysiology of autoimmune and inflammatory diseases in humans by analyzing the constituent cells and immune cells in affected tissues of autoimmune and inflammatory diseases in detail.
- Methods
- single-cell RNA-seq, bulk RNA-seq, scASAP-seq, CITE-seq, VDJ-seq, Spacial RNA expression analysis (Xenium)
- Participants/materials
- [scRNA-seq] Blood (10 + 9), joint fluid (4 + 4), and synovial membrane (11 + 10) samples from 11 + 10 rheumatoid arthritis patients, Blood samples from 3 healthy controls, Co-culture of joint fluid (1) from another rheumatoid arthritis patient and blood sample from control subject (1)
[bulk RNA-seq] Joint fluid (1) samples from 1 rheumatoid arthritis patient, Blood samples from 1 healthy controls
[scASAP-seq] Synovial membrane (1) samples from 1 rheumatoid arthritis patient
[CITE-seq] Blood (9), joint fluid (4), and synovial membrane (10) samples from 10 rheumatoid arthritis patients, Co-culture of joint fluid (1) from another rheumatoid arthritis patient and blood sample from control subject (1)
[VDJ-seq] Blood (9), joint fluid (4), and synovial membrane (10) samples from 10 rheumatoid arthritis patients
[Xenium] Synovial membrane (3) samples from 3 rheumatoid arthritis patients - URL
- N/A
Datasets
| Cart | Dataset ID | Type of data | Analysis method | Access criteria | Date published |
|---|---|---|---|---|---|
| JGAD000860 | NGS (scRNA-seq, bulk RNA-seq, CITE-seq) |
| Controlled-access (Type I) | 2025-08-05 | |
| JGAD000916 | NGS (scRNA-seq, bulk RNA-seq, scASAP-seq, CITE-seq, VDJ-seq), Xenium |
| Controlled-access (Type I) | 2025-08-05 |
Data provider
- Principal investigator
- Hiroyuki Yoshitomi
- Affiliation
- Department of Immunology, Graduate School of Medicine, Kyoto University
Research projects
No research projects.
Grants
No grants.
Related publications
| Title | DOI | Dataset ID |
|---|---|---|
Human CD4+ T cells regulate peripheral immune responses in rheumatoid arthritis via insulin-like growth factor like family member 2 | ||
Stem-like and effector peripheral helper T cells comprise distinct subsets in rheumatoid arthritis |
Controlled access users
| Principal investigator | Affiliation | Country/Region | Research title | Period of data use | Dataset ID |
|---|---|---|---|---|---|
| Michiaki Hamada | Hamada Laboratory, Faculty of Science and Engineering, Waseda University | Japan | Construction of RNA-targeted Drug Discovery Database | 2023-01-05 – 2027-10-31 | |
| Isao Matsumoto | Department of Rheumatology, Institute of Medicine, University of Tsukuba | Japan | Investigation of aging-related functional alterations in CD4⁺ T cells in rheumatoid arthritis and experimental arthritis models | 2025-12-05 – 2029-03-31 | |
| Chiara Romagnani | Romagnani Lab, Institute of Medical Immunology, Charite - Universitaetsmedizin Berlin, Charite, Universitaetsmedizin Berlin | Germany | Retrospective analysis of transcriptional signatures of innate lymphocytes in childhood and adult rheumatic diseases | 2026-07-29 – 2027-12-31 | |
| Hirohito Ishigaki | Dept. of Pathology, Shiga University of Medical Science | Japan | Analysis of the role and function of CD4/CD8 double positive T cells in Rheumatoid arthritis | 2026-06-09 – 2028-03-31 |