NBDC Research ID: hum0106.v1



Aims: analysis of cellular diversity and hierarchy of human colorectal cancer (CRC)

Methods: single cell RNA-seq

Participants/Materials: culture tissues derived from CRC patients


Dataset IDType of DataCriteriaRelease Date
JGAS000139 NGS (scRNA-seq) Controlled-access (Type I) 2022/09/05

*Release Note 

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CRC (ICD10: C18) patients

5 tumor tissues derived from 2 CRC patients (HCT24, HCT25)

    (2 cells from HCT24 and 3 cells from HCT25)

non-tumor tissues derived from 1 CRC patient (HCT71)

Targets scRNA-seq
Target Loci for Capture Methods -
Platform Illumina [HiSeq 2500]
Library Source RNAs extracted from single cells of culture tissues derived from CRC patients
Cell Lines -
Library Construction (kit name) Chromium Single Cell 3' v1 Reagent kit
Fragmentation Methods Enzymatic fragmentation
Spot Type Single-end
Read Length (without Barcodes, Adaptors, Primers, and Linkers) 50 bp [Read1(transcript) 50bp, Read2(UMI) 15bp, Index1(CellBarcode) 14bp and Index2 (Sample Index) 8bp]
Japanese Genotype-phenotype Archive Dataset ID JGAD000208
Total Data Volume 44 GB (fastq)
Comments (Policies) NBDC policy

This study was supported by “Genome Science”. “Genome Science” is a part of the “Support Programs for Three Fields in Life Sciences (cancer, genome and brain sciences)” established by the Ministry of Education, Culture, Sports, Science and Technology (MEXT) under the Grant-in-Aid for Scientific Research on Innovative Areas.



Principal Investigator: Ryoji Yao

Affiliation: The Cancer Institute of JFCR

Project / Group Name: project orgnaoid

URL: https://www.jfcr.or.jp/laboratory/department/cell_biology/www/index.html

Funds / Grants (Research Project Number):

NameTitleProject Number
KAKENHI Grant-in-Aid for Challenging Exploratory Research Analysis of cellular heterogeneity of colorectal cancer 16K14620
KAKENHI Grant-in-Aid for Scientific Research on Innovative Areas Platform for advanced genome science 16H06279



TitleDOIDataset ID
1 Comparative Analysis of Patient-Matched PDOs Revealed a Reduction in OLFM4-Associated Clusters in Metastatic Lesions in Colorectal Cancer doi: 10.1016/j.stemcr.2021.02.012 JGAD000208


USRES (Controlled-access Data)

Principal InvestigatorAffiliationCountry/RegionResearch TitleData in Use (Dataset ID)Period of Data Use