NBDC Research ID: hum0125.v1
SUMMARY
Aims: Analysis of immune cells in autoimmune diseases
Methods: RNA-seq
Participants/Materials: Lesions from Crohn's disease patients and normal colorectal tissues from colorectal cancer patients
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000127 | NGS (RNA-seq) | Controlled-access (Type I) | 2018/11/05 |
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MOLECULAR DATA
| Participants/Materials |
Crohn's disease (ICD10: K50): 3 cases colorectal cancer: 4 cases (normal tissues) |
| Targets | RNA-seq |
| Target Loci for Capture Methods | - |
| Platform | Thermo Fisher Scientific [Ion S5] |
| Library Source | RNAs extracted from isolated cells using different markers (CD14-CD11c- / CD14-CD11c- / CD14+CD11c-CD163low) from lesions of Crohn's diseases and normal colorectal tissues of colorectal cancers |
| Cell Lines | - |
| Library Construction (kit name) | KAPA Library Preparation Kit |
| Fragmentation Methods | KAPA Frag |
| Spot Type | Single-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 150 bp on average |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000138 |
| Total Data Volume | 86 GB (fastq) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Shimon Sakaguchi
Affiliation: Experimental Immunology, IFReC, Osaka University
Project / Group Name: -
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| KAKENHI Grant-in-Aid for Scientific Research (A) | Analysis of the pathology of inflammatory bowel disease | 15H02511 |
| KAKENHI Grant-in-Aid for Young Scientists (B) | Mechanism and function analysis of abnormal activation of antigen presenting cells in inflammatory bowel disease | 17K16546 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Innate Myeloid Cell Subset-Specific Gene Expression Patterns in the Human Colon are Altered in Crohn’s Disease Patients | doi: 10.1159/000490890 | JGAD000138 |
| 2 |
USRES (Controlled-access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
| Michiaki Hamada | Faculty of Science and Engineering, Waseda University | Japan | Construction of RNA-targeted Drug Discovery Database | JGAD000138 | 2022/12/26-2025/03/31 |
