NBDC Research ID: hum0483.v1
SUMMARY
Aims: The Keio Women’s Health Biobank, established by the Department of Obstetrics and Gynecology at Keio University School of Medicine, contributes to medical research by providing gynecologic tumor-derived organoids, along with associated clinical information, multi-omics data, and drug sensitivity profiles, to domestic and international research institutions and pharmaceutical companies.
Methods: Whole exome sequencing, RNA sequencing
Participants/Materials: Ovarian cancer
Exome: Ovarian clear cell carcinoma: 11 cases (tumor-derived organoid: 11 samples, normal tissue: 11 samples)
RNA-seq: Ovarian clear cell carcinoma: 10 cases (tumor-derived organoid: 10 samples, AGR2 knockout clear cell carcinoma organoid: 4 samples, GFP overexpressed clear cell organoid as control: 2 samples)
High-grade serous carcinoma: 7 cases (tumor-derived organoid: 7 samples)
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000655 | NGS (Exome, RNA-seq) | Controlled-access (Type I) | 2025/06/10 |
*Data users need to apply an application for Using NBDC Human Data to reach the Controlled-access Data. Learn more
MOLECULAR DATA
| Participants/Materials |
Ovarian clear cell carcinoma (ICD10: C56): 11 cases tumor-derived organoid: 11 samples normal tissue: 11 samples |
| Targets | Exome |
| Target Loci for Capture Methods | - |
| Platform | Illumina [NovaSeq 6000] |
| Library Source | DNA extracted from tumor-derived organoids and normal tissue from peripheral blood mononuclear cells |
| Cell Lines | - |
| Library Construction (kit name) | |
| Fragmentation Methods | Enzymatic fragmentation |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 150 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000905 |
| Total Data Volume | 519.5 GB (fastq) |
| Comments (Policies) | NBDC policy |
| Participants/Materials |
Ovarian clear cell carcinoma (ICD10: C56): 10 cases tumor-derived organoid: 10 samples AGR2 knockout clear cell carcinoma organoid: 4 samples GFP overexpressed clear cell carcinoma organoide: 2 samples High-grade serous carcinoma (ICD10: C56): 7 cases tumor-derived organoid: 7 samples |
| Targets | RNA-seq |
| Target Loci for Capture Methods | - |
| Platform |
Illumina [Hiseq X Ten, NovaSeq 6000] MGI [DNBSEQ-G400] |
| Library Source | RNA extracted from tumor-derived organoids |
| Cell Lines | - |
| Library Construction (kit name) | TruSeq RNA Exome Kit |
| Fragmentation Methods | Heat treatment |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 150 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000905 |
| Total Data Volume | 519.5 GB (fastq) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Tatsuyuki Chiyoda
Affiliation: Department of Obstetrics and Gynecology, Keio University School of Medicine
Project / Group Name: Therapeutic Development for Ovarian Cancer / Clinical Oncology and Clinical Genetics Lab
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| KAKENHI Grant-in-Aid for Early-Career Scientists | Development of Nucleic Acid Therapeutics Targeting Small RNA-mRNA Networks in Ovarian Cance | 19K18651 |
| KAKENHI Grant-in-Aid for Scientific Research (B) | Development of Curative Treatment for Refractory Ovarian Cancer Using Omics Analysis of Ovarian Cancer Organoid Banks | 21H03079 |
| KAKENHI Grant-in-Aid for Early-Career Scientists | Overcoming PARP Inhibitor Resistance Acquisition - Utilizing BRCA1/2 Mutant Organoids - | 21K16822 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | High-throughput drug screening of clear cell ovarian cancer organoids reveal vulnerability to proteasome inhibitors and dinaciclib and identify AGR2 as a therapeutic target | doi: 10.1158/2767-9764.CRC-25-0024 | JGAD000905 |
| 2 |
USRES (Controlled-access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
