NBDC Research ID: hum0422.v1
SUMMARY
Aims: Endometrial cancer (EC) incidence is rising, emphasizing the need for advancements in prevention and treatment. Type I ECs have endometrioid carcinoma G1/G2 histology and depend on estrogen, while Type II ECs occur post-menopause and are estrogen-independent. Genomic analysis has identified four subtypes: ultra-mutated (POLE mutation), hypermutated (microsatellite instability), copy-number low, and copy-number high groups. However, the relationship between tumor histopathology and the genomic classification needs further clarification. To develop effective prevention and treatment, we aim to understand EC's carcinogenesis and etiology.
Methods: Whole exome sequencing, RNA sequencing
Participants/Materials: 89 ECs
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000753 | NGS (Exome, RNA-seq) | Controlled-access (Type I) | 2026/03/24 |
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MOLECULAR DATA
| Participants/Materials |
ECs (ICD10: C54): 88 case tumor and non-tumor tissues pairs: total 176 samples |
| Targets | Exome |
| Target Loci for Capture Methods | - |
| Platform | Illumina [NovaSeq 6000] |
| Library Source | DNA extracted from tumor and non-tumor tissues |
| Cell Lines | - |
| Library Construction (kit name) | Twist Comprehensive Exome Panel Kit |
| Fragmentation Methods | Enzymatic fragmentation |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 150 bp |
| Mapping Methods | BWA, bowtie2 |
| Mapping Quality | median 59.57 (59.44–59.73) |
| Reference Genome Sequence | GRCh38 |
| Coverage (Depth) | 94.5% (20x) |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000894 |
| Total Data Volume | 1.2 TB（bam） |
| Comments (Policies) | NBDC policy |
| Participants/Materials |
ECs (ICD10: C54): 86 case tumor tissues: 86 samples non-tumor tissues (tumor adjacent normal): 9 samples |
| Targets | RNA-seq |
| Target Loci for Capture Methods | - |
| Platform | Illumina [NovaSeq 6000] |
| Library Source | RNA extracted from tumor and non-tumor tissues |
| Cell Lines | - |
| Library Construction (kit name) | NEBNext® Ultra™ II RNA Library Prep Kit for Illumina |
| Fragmentation Methods | included in the above library construction kit (NEBNext fragmentation buffer under heat) |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 150 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000894 |
| Total Data Volume | 1.2 TB（fastq） |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Masahito Kawazu
Affiliation: Division of Cell Therapy, Chiba Cancer Center Research Institute
Project / Group Name: -
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| The Uehara Memorial Foundation (2022) | Genomic Alterations Driving Immune Evasion in Endometrial Cancer | - |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | |||
| 2 |
USRES (Controlled-access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
