NBDC Research ID: hum0517.v1
SUMMARY
Aims: To establish an optimal method to evaluate the anti-tumor efficacy and biological activity in vivo using tumor tissues and cells derived from patients with gynecological malignancies, and to evaluate them in practice. This research will contribute to the development of new treatments for gynecological cancer.
Participants/Materials: Endometrial cancer 30 cases and tumor tissues propagated in patient-derived xenografts (PDXs)
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000809 | NGS (Exome) | Controlled-access (Type I) | 2025/06/17 |
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MOLECULAR DATA
| Participants/Materials |
Endometrial cancer (ICD10: 549): 30 cases tumor tissue: 30 samples PDX tumor tissue: 31 samples |
| Targets | Exome |
| Target Loci for Capture Methods | - |
| Platform | Illumina [NovaSeq 6000] |
| Library Source | DNAs extracted from tumor tissues and PDX tumor tissues |
| Cell Lines | - |
| Library Construction (kit name) | Agilent SureSelect Clinical Research panel v2 |
| Fragmentation Methods | Enzymatic fragmentation |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 75 bp |
| Mapping Methods | BWA-MEM (v0.7.15) |
| Mapping Quality | Reads with MAPQ<20 were excluded during variant calling using Mutect2 (GATK v4.1.1.0) |
| Reference Genome Sequence | GRCh37 |
| Coverage (Depth) | 115x |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000951 |
| Total Data Volume | 970.6 GB (bam) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Kosei Hasegawa
Affiliation: Department of Gynecologic Oncology, Saitama Medical University International Medical Center
Project / Group Name: EC-PDX project
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Establishing a comprehensive panel of patient-derived xenograft models for high-grade endometrial carcinoma: molecular subtypes, genetic alterations, and therapeutic target profiling | doi: 10.1016/j.neo.2025.101158 | JGAD000951 |
| 2 |
USRES (Controlled-Access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
