Research ID
hum0277-v1Release info
This page is a past version (v1). The latest version is v4.
Latest version (v4)Research title
Analysis of genes related to the oncogenesis, progression or effectiveness of drug therapies of urological tumors
Research overview
- Aims
- To clarify the oncogenesis and the progression mechanisms of urological tumors, we performed comprehensive epi-genetic analyses. Through the analyses, we aim for elucidating the oncogenesis or for developing new treatment strategies for each cancer.
- Methods
- single-cell RNA sequencing (scRNA-seq), whole exome sequencing (WES), and RNA-seq
- scRNA-seq: We sliced surgically resected specimens and minced and digested into the single cell level. Libraries were prepared using Chromium single cell 3' kit (10X Genomics) according to the manufacturer's protocol. Paired-end sequencing was conducted on the NextSeq 500 platform (Illumina).
- WES: Libraries were prepared using SureSelect Human All Exon V6 (Agilent Technologies) and sequenced by using of NovaSeq 6000/PE150 (Illumina).
- RNA-seq: Libraries were prepared using TruSeq Stranded mRNA Library Prep Kit and TruSeq RNA CD Index Kit (Dual Index) and sequenced by using of HiSeq 2500 (Illumina). - Participants/materials
- 10 patients with Birt-Hogg-Dubé (BHD) associated renal cell carcinoma (RCC), 1 patient with hereditary leiomyomatosis and renal cell cancer (HLRCC) associated RCC, 2 patients with Von Hippel-Lindau (VHL) associated RCC, and 2 patients with sporadic clear cell RCCs (ccRCC)
- scRNA-seq: 2 BHD-associated RCC, 1 HLRCC-associated RCC, 2 VHL-associated RCCs, and 2 ccRCC
- WES: 2 BHD-associated RCC, 1 HLRCC-associated RCC, 2 VHL-associated RCCs, and 2 ccRCC
- RNA-seq: 10 BHD-associated RCCs - URL
- N/A
Datasets
The list is the one this version published; each dataset's content is shown as it is now.
| Cart | Dataset ID | Type of data | Analysis method | Access criteria | Date published |
|---|---|---|---|---|---|
| JGAD000414 | NGS (scRNA-seq, Exome, RNA-seq) |
| Controlled-access (Type I) | 2022-08-25 |
Data provider
- Principal investigator
- Hisashi Hasumi
- Affiliation
- Department of Urology, Yokohama City University
Research projects
No research projects.
Grants
| Name | Title | Project number |
|---|---|---|
KAKENHI Grant-in-Aid for Scientific Research (C) | Analysis on the mechanism of renal tumorigenesis focusing on the metabolic and membrane transport regulation of FLCN |
|
the MEXT Joint Usage/Research Center Program | The Advanced Medical Research Center of Yokohama City University "Center for Advanced Medical Research Collaboration in Multi-omics Gene Expression Regulation" | N/A |
Related publications
| Title | DOI | Dataset ID |
|---|---|---|
Single-cell transcriptomes underscore genetically distinct tumor characteristics and microenvironment for hereditary kidney cancers |
Controlled access users
| Principal investigator | Affiliation | Country/Region | Research title | Period of data use | Dataset ID |
|---|---|---|---|---|---|
| Antonio Finelli | Department of Surgical Oncology, University Health Network/Princess Margaret Cancer Center | Canada | Identifying novel immune evasion tumor immune networks as targets for ccRCC immunotherapy | 2023-11-16 – 2024-11-13 | |
| Soki Kashima | Urology, Akita University | Japan | A study to identify biomarkers for predicting treatment response and adverse events in immunotherapy for urological cancers (renal cell carcinoma and urothelial carcinoma) | 2026-06-18 – 2034-05-31 |