NBDC Research ID: hum0058.v1
SUMMARY
Aims: Identification of molecular targets for development effective therapeutic methods and genomic or epigenomic markers for stratification of colorectal cancer patients.
Methods: Exome analysis by using of Illumina HiSeq 2000
Participants/Materials: 297 normal, primary tumor, and metastasis tumor samples from 89 colorectal cancer patients
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000091 |
NGS (Exome) | Controlled-access (Type I) | 2018/04/06 |
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MOLECULAR DATA
| Participants/Materials |
colorectal cancer: 89 cases (Total: 297 samples) non-tumor tissue: 89 samples tumor tissue (metastasis/recurrence): 208 samples |
| Targets | Exome |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 2000] |
| Library Source | DNAs extracted from tumor and non-tumor tissues from 89 colorectal cancer patients |
| Cell Lines | - |
| Library Construction (kit name) | SureSelect Human All Exon V4 + lincRNA, 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 | JGAD000091 |
| Total Data Volume | 6 TB (fastq [594 files]) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Toshiharu Yamaguchi
Affiliation: The Cancer Institute Hospital of Japanese Foundation For Cancer Research (JFCR)
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 | JP15cm0106060 |
| JSPS KAKENHI |
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 |
|---|---|---|---|---|---|
| Teruhisa Hochin | Faculty of Information and Human Sciences, Kyoto Institute of Technology | Analysis of mutation of human genome using Machine Learning | JGAD000091 | 2019/07/09-2021/03/31 | |
| Kouya Shiraishi | Division of Genome Biology, National Cancer Research Institute | Elucidation of immune-system networks between host and tumor based on genomic analysis | JGAD000091 | 2019/08/05-2023/03/31 | |
| 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 | JGAD000091 | 2020/03/13-2025/03/31 |
