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 IDType of DataCriteriaRelease 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

*Release Note

*Data users need to apply an application for Using NBDC Human Data to reach the Controlled-access Data. Learn more

 

MOLECULAR DATA

JGAS000157

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

JGAD000689

The way to Process

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

TitleDOIDataset ID
1 -
2

 

USERS (Controlled-Access Data)

Principal InvestigatorAffiliationResearch TitleData 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