Skip to content
NBDC Human Database

No datasets in the cart.

Go to the cart

Due to system maintenance, the application system, application review by the Data Access Committee will be unavailable during the following period.
Schedule: October 5th (Mon), 2026, 9:00 - October 7th (Wed), 2026, 15:00 (JST)
We apologize for any inconvenience this may cause and appreciate your understanding.

We are currently receiving a large number of applications for data submission, and the review process is taking longer than usual.We sincerely apologize for the delay and kindly ask for your understanding. When submitting an application, we would greatly appreciate it if you could allow sufficient time for the processing.

Following a change to our organizational structure effective April 1, 2026, this division has been renamed from the "Database Center for Life Science, Joint Support-Center for Data Science Research" to the "Database Division for Life Science (DBCLS), BioData Science Initiative (BSI), National Institute of Genetics (NIG)". Where the former name still appears in the guidelines, please read it as the new name.

Dataset ID

JGAD000875

Type of data
NGS (RNA-seq)
Access criteria
Controlled-access (Type I)
Total data volume
31.3 GB
File formats
  • FASTQ
  • CSV
Research
hum0477
Date published
2024-10-18
Date modified
2025-05-28
DDBJ Search
JGAD000875 (opens in a new tab)
JGA Study
JGAS000740 (opens in a new tab)

Analysis method

RNA-seq

Materials and participants
- Epithelial cells from healthy colon organoid from a colorectal cancer (ICD10: C18.6) patient
before co-cultivation with B. longum: 3 sample
after co-cultivation with B. longum: 3 + 3 samples
cultivation without B. longum: 7 samples
- Caco-2 cells
before co-cultivation with B. longum: 3 sample
before co-cultivation with B. longum: 3 + 3 samples
cultivation without B. longum: 7 sample
  • Health status
    Mixed
  • Subject count
    32 (Sample)
Disease
colorectal cancer (C186)
Sample description
RNAs extracted from epithelial cells or Caco-2 cells
  • Tissue
    Cell line, Intestinal organoid
  • Tumor / normal
    Mixed
Cell line
Caco-2
Sample provider
Caco-2 cells
Experimental method
RNA-seq
Target
N/A
Reagent kit
IDT for Illumina RNA UD Indexes Set A-B Ligation
Illumina Stranded mRNA Prep
Fragmentation
Exposure to cations at high temperature conditions
Platform
Illumina NextSeq 1000
Read type
Paired-end
Read length
100 bp
Reference genome
GRCh38
QC and filtering
FastQC
Analysis method
HISAT2
Gene count
60,606 genes
Data use policy
NBDC data sharing policy (JGAP000001)