NBDC Research ID: hum0323.v1

SUMMARY

Aims: Exploration of biomarkers for early diagnosis and prognosis of colon cancer.

Methods: RNA extracts of colon cancer tissues dissected by surgery are subjected to CAGE profiling.

Participants/Materials: 45 colon cancers

Dataset ID	Type of Data	Criteria	Release Date
JGAS000489	NGS (CAGE-seq)	Controlled-access (Type I)	2022/01/24

*Release Note

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

MOLECULAR DATA

JGAS000489


Participants/Materials	colon cancer (ICD10: C18.9): 45 cases
Targets	CAGE-seq
Target Loci for Capture Methods	-
Platform	Illumina [HiSeq 2500]
Library Source	RNA extracted from surgically dissected tumor tissues
Cell Lines	-
Library Construction (kit name)	CAGE assay (*References)
Fragmentation Methods	-
Spot Type	Single-end
Read Length (without Barcodes, Adaptors, Primers, and Linkers)	47 bp
Japanese Genotype-phenotype Archive Dataset ID	JGAD000606
Total Data Volume	19.2 GB (fastq)
Comments (Policies)	NBDC policy

*References for CAGE assay

1) Detecting expressed genes using CAGE. Methods Mol Biol. 2014; 1164:67–85. (doi: 10.1007/978-1-4939-0805-9_7)

DATA PROVIDER

Principal Investigator: Yasushi Kogo

Affiliation: RIKEN Cluster for Science, Technology and Innovation Hub

Project / Group Name:Genome-wide exploration for diagnostic biomarkers in colon cancer by using CAGE (Kazuhiro Sakamoto, Kiichi Sugimoto at Juntendo University; Yoshihide Hayashizaki at RIKEN Preventive Medicine & Diagnosis Innovation Program)

Funds / Grants (Research Project Number):

Name	Title	Project Number
Research Grant to RIKEN Omics Science Center from MEXT	-	-
Research Grant to RIKEN Preventive Medicine and Diagnosis Innovation Program from MEXT	-	-

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