NBDC Research ID: hum0095.v1
SUMMARY
Aims: to investigate the genomic signature and the mechanism of early stage of colorectal carcinogenesis
Methods: DNAs were extracted from tumor tissues and matched normal samples and performed whole exome sequencing
Participants/Materials: 10 cases of colorectal adenomas or precancerous lesions of colorectal cancers (PCRCs) in total
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000092 | NGS (Exome) | Controlled-access (Type I) | 2018/07/30 |
*Data users need to apply an application for Using NBDC Human Data to reach the Controlled-access Data. Learn more
MOLECULAR DATA
| Participants/Materials |
colorectal adenomas or PCRCs: 10 cases in total (63 samples [tumor tissues: 53 samples, non-tumor tissues: 10 samples]) |
| Targets | Exome |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 2500] |
| Library Source | DNAs extracted from tumor tissues or non-tumor tissues (normal colonic mucosa tissues) from colorectal adenomas or PCRCs |
| Cell Lines | - |
| Library Construction (kit name) | SureSelect Human ALL Exon V5 |
| Fragmentation Methods | Ultrasonic fragmentation (Covaris) |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 100 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000092 |
| Total Data Volume | 682 GB (fastq) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Koshi Mimori
Affiliation: Department of Surgery, Kyushu University Beppu Hospital
Project / Group Name: -
URL: https://www.beppu.kyushu-u.ac.jp/geka/en/index.html
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| KAKENHI Grant-in-Aid for Young Scientists (B) | Investigation into the genes associated with the colorectal cancer evolution in the early stage of carcinogenesis | 16K19107 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | A temporal shift of the evolutionary principle shaping intratumor heterogeneity in colorectal cancer | doi: 10.1038/s41467-018-05226-0 | JGAD000092 |
| 2 |
USRES (Controlled-access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
| Kouya Shiraishi | Division of Genome Biology, National Cancer Research Institute | Elucidation of immune-system networks between host and tumor based on genomic analysis | JGAD000092 | 2019/08/05-2023/03/31 |
