Research ID
hum0207-v1Release info
Latest
Research title
Analysis of gene polymorphism and gene expression in human immune cells
Research overview
- Aims
- To elucidate the dynamics of synovial fibroblasts and its association with rheumatoid arthritis pathogenesis.
- Methods
- Synovial fibroblasts from rheumatoid arthritis and osteoarthritis patients (as a control) were stimulated with 9 cytokine conditions (IFN-α, IFN-γ, TNF-α, IL-1β, IL-6/sIL-6R, IL-17, TGF-β1, IL-18 and the mixture of these 8 cytokines [8-mix] which simulate synergistic inflammatory environment in arthritic joints) for 24 hours. Five subsets of peripheral blood mononuclear cells (CD4+ T, CD8+ T, B, NK and monocytes) were collected from the same patients. The integrative analysis including expression quantitative trait loci (eQTL) was performed with genome, transcriptome and epigenome data.
- Participants/materials
- Patients with rheumatoid arthritis or osteoarthritis
- URL
- N/A
Datasets
| Cart | Dataset ID | Type of data | Analysis method | Access criteria | Date published |
|---|---|---|---|---|---|
| NHA000134 | Read counts for each gene detected from NGS (RNA-seq) |
| Unrestricted-access | 2020-01-06 | |
| NHA000132 | Peaks from NGS (ChIP-seq) |
| Unrestricted-access | 2020-01-06 | |
| NHA000133 | Loops from NGS (Hi-C) |
| Unrestricted-access | 2020-01-06 | |
| NHA000135 | eQTL |
| Unrestricted-access | 2020-01-06 |
Data provider
- Principal investigator
- Keishi Fujio
- Affiliation
- Department of Allergy and Rheumatology, Graduate School of Medicine, The University of Tokyo
Research projects
| Name | URL |
|---|---|
Association study between gene polymorphism and gene expression in human immune cells | N/A |
Grants
| Name | Title | Project number |
|---|---|---|
KAKENHI Grant-in-Aid for Scientific Research (B) | Analysis of epigenetic structure responsible for inflammatory mediator production from rheumatoid arthritis synovial fibroblast |
|
KAKENHI Grant-in-Aid for Scientific Research (C) | Analysis of signaling pathways identified by transcriptome analysis of rheumatoid arthritis samples |
|
Joint research fund (Takeda Pharmaceutical Company Limited) | Construction of integrated disease database and its clinical application | N/A |
Joint research fund (Takeda Pharmaceutical Company Limited) | Search for drug targets and development of therapeutic methods based on eQTL | N/A |
Related publications
| Title | DOI | Dataset ID |
|---|---|---|
Parsing multiomics landscape of activated synovial fibroblasts highlights drug targets linked to genetic risk of rheumatoid arthritis |