NBDC Research ID: hum0060.v1
SUMMARY
Aims: To find the characteristics of recurrent / metastatic breast cancers by carrying out a "molecular profiling", mainly the exome sequence analysis of cancerous tissues of the primary and recurrence tumors from the same patient with recurrent / metastatic breast cancer.
Methods: Whole exome sequencing by using of Illumina HiSeq 2000
Participants/Materials: Total of 175 normal, primary tumor, and metastasis tumor samples from 65 breast cancer patients
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000075 | NGS (Exome) | Controlled-access (Type I) | 2018/04/03 |
*Data users need to apply an application for Using NBDC Human Data to reach the Controlled-access Data. Learn more
MOLECULAR DATA
| Participants/Materials | 65 patient with recurrent / metastatic breast cancer |
| Targets | Exome |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 2000] |
| Library Source | DNAs extracted from normal, primary tumor and metastasis tumor tissues |
| Cell Lines | - |
| Library Construction (kit name) | SureSelect Human All Exon V5 + lincRNA |
| Fragmentation Methods | Ultrasonic fragmentation (Covaris E220) |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 100 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000075 |
| Total Data Volume | 4 TB (fastq [350 files]) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Yoshio Miki
Affiliation: Medical Research Institute, Tokyo Medical and Dental University
Project / Group Name: -
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| Project for Development of Innovative Research on Cancer Therapeutics (P-DIRECT), Japan Agency for Medical Research and Development (AMED) | Development of the Intractable Cancer Therapies through the New Target Identification by the Molecular Profiling | |
| JSPS KAKENHI |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 |
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 | JGAD000075 | 2020/03/13-2025/03/31 | |
| Takashi Kohno | Division of Genome Biology, National Cancer Center Research Institute | Identification of genetic risk factors in AYA (Adolescence and Young Adult) cancer | JGAD000075 | 2021/09/27-2025/03/31 |
