NBDC Research ID: hum0159.v2
SUMMARY
Aims: To investigate genomic alterations of Japanese colorectal cancers
Methods: DNAs were extracted from colorectal cancer tissues and paired non-cancer (normal) tissues. NGS libaraies were prepared by using TruSeq DNA LT Sample Prep Kit or TruSeq Nano DNA Low Throughput Library Prep Kit for whole genome sequencing (WGS). Sequencing was perfomred by Illumina HiSeq 2000.
Participants/Materials: DNAs extracted from cancer tissues and non-cancer tissues of Japanese colorectal cancer patients.
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000157 | NGS (WGS) | Controlled-access (Type I) | 2021/06/01 |
| JGAD000689 | Processed data of JGAD000235 by JGA | Controlled-access (Type I) | 2022/12/27 |
*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 cancer (ICD10: C18): 10 cases cancer tissues: 10 samples paired non-cancer tissues: 10 samples |
| Targets | WGS |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 2000] |
| Library Source | DNAs extracted from cancer tissues and paired non-cancer tissues from colorectal cancer patients |
| Cell Lines | - |
| Library Construction (kit name) |
TruSeq DNA LT Sample Prep Kit, TruSeq Nano DNA Low Throughput Library Prep Kit |
| 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 | JGAD000235 |
| Dataset ID of the Processed data by JGA | |
| Total Data Volume | 2 TB (fastq) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Hidewaki Nakagawa
Affiliation: RIKEN Center for Integrative Medical Sciences
Project / Group Name: -
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| - |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | - | ||
| 2 |
USERS (Controlled-Access Data)
| Principal Investigator | Affiliation | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|
| Takashi Kohno | Division of Genome Biology, National Cancer Center Research Institute | Identification of genetic risk factors in AYA (Adolescence and Young Adult) cancer | JGAD000235 | 2021/11/29-2025/03/31 |
