NBDC Research ID: hum0175.v2
SUMMARY
Aims: Development of actionable molecular targets and/or biomarkers for prognostication and patient stratification
Methods: Exome analysis and target capture analysis (596 genes) by using Illumina HiSeq 2000
Participants/Materials: primary tumor tissues and non-tumor tissues from 69 endometrial carcinoma patients, endometrial hyperplasia lesions and matched normal tissues/whole blood from 30 endometrial hyperplasia patients
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000174 | NGS (Exome) | Controlled-access (Type I) | 2019/10/02 |
| JGAS000642 | NGS (Target Capture) | Controlled-access (Type I) | 2024/03/01 |
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MOLECULAR DATA
| Participants/Materials |
Endometrial carcinoma (ICD10: C541): 69 cases (tumor tissues: 118 samples, non-tumor tissues: 69 samples) |
| Targets | Exome |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 2000] |
| Library Source | DNAs extracted from tumor or non-tumor tissues |
| Cell Lines | - |
| Library Construction (kit name) | SureSelect Human All Exon V4 or V5 |
| Fragmentation Methods | Ultrasonic fragmentation (Covaris) |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 101 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000254 |
| Total Data Volume | 5 TB (fastq) |
| Comments (Policies) | NBDC policy |
| Participants/Materials |
Endometrial hyperplasia (ICD10: N850): 30 cases 92 endometrial hyperplasia lesions (48 non-atypical from 30 cases and 44 atypical from 24 cases) matched normal tissues/whole blood: 30 samples |
| Targets | Target Capture |
| Target Loci for Capture Methods | 596 genes |
| Platform | Illumina [HiSeq 2000] |
| Library Source | DNAs extracted from endometrial hyperplasia lesions and normal tissues/whole blood |
| Cell Lines | - |
| Library Construction (kit name) | KAPA Hyper Plus or SureSelect |
| Fragmentation Methods | Enzymatic fragmentation (DNase) or Ultrasonic fragmentation (Covaris) |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 101 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000772 |
| Total Data Volume | 460 GB (fastq) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Nobuhiro Takeshima
Affiliation: The Cancer Institute Hospital of JFCR
Project / Group Name: -
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| The Vehicle Racing Commemorative Foundation | Exploration of relevant mutations associated with relapsing or refractory ovarian cancer. | 5144, 5274, and 5393 |
| KAKENHI Grant-in-Aid for Scientific Research (C) | Genome-wide analyses of endometrial endometrioid carcinoma for early detection and personalized medicine. | 26462543 |
| KAKENHI Grant-in-Aid for Scientific Research (C) | Molecular analysis of malignant ascites formation by single-cell RNA-sequencing. | 15K06861 |
| KAKENHI Grant-in-Aid for Scientific Research (C) | Identification of the progestin therapy resistance genes in time-course endometrial cancer samples. | 17K11308 |
| KAKENHI Grant-in-Aid for Young Scientists (B) | Whole genome sequencing analyses of uterine and ovarian carcinosarcoma. | 17K18337 |
| KAKENHI Grant-in-Aid for Scientific Research (C) | Immune microenvironment analyses of uterine and ovarian carcinosarcoma. | 18K07338 |
| Project for Promotion of Cancer Research and Therapeutic Evolution (P-PROMOTE), Japan Agency for Medical Research and Development (AMED) | Understanding of tumorigenic program and identification of novel biomarker for early detection and prevention of endometrial cancer through spatial epigenome analysis | JP22ama221513 |
| KAKENHI Grant-in-Aid for Scientific Research (C) | Exploration of CTCF downstream targets in endometrial cancer | JP20K09634 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Two Distinct Tumorigenic Processes in Endometrial Endometrioid Adenocarcinoma. | doi: 10.1016/j.ajpath.2019.09.022 | JGAD000254 |
| 2 | Genetic and epigenetic alterations in precursor lesions of endometrial endometrioid carcinoma | doi: 10.1002/path.6278 | JGAD000772 |
USRES (Controlled-access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
| Masaki Mandai | Kyoto University Faculty of Medicene, department of Gynecology and Obstetrics | Integrated analyses of omics (genomics, transcriptomics, proteomics and metabolomics) associated with clinical variables for developing indivisualizedtreatment in gynecological malignancy | JGAD000254 | 2020/03/13-2025/03/31 |
