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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

E-GEAD-552

Type of data
NGS (RNA-seq)
NGS (ATAC-seq)
Access criteria
Unrestricted-access
Total data volume
44.4 MB
File formats
  • TXT
Research
hum0366
Date published
2023-03-20
Date modified
2023-03-20
DDBJ Search
E-GEAD-552 (opens in a new tab)

Analysis method

RNA-seq

Materials and participants
healthy subjects : 4 individuals (4 samples each)
  • Health status
    Healthy
  • Subject count
    4 (Individual)
Sample description
Total RNA extracted from monocytes derived from PBMCs
  • Tissue
    Monocyte
  • Tumor / normal
    Normal
Sample provider
N/A
Experimental method
RNA-seq
Target
N/A
Reagent kit
Nextera XT DNA Library Prep Kit
Fragmentation
Tagmentation (Nextera XT DNA Library Preparation Kit)
Platform
Illumina NovaSeq 6000
Read type
Paired-end
Read length
101 bp
Reference genome
GRCh38
Mapping
HISAT2
QC and filtering
Low-quality (<20) bases and adaptor sequences were trimmed with Trimmomatic software (version 0.38) with the following parameters: ILLUMINACLIP: path/to/adapter.fa:2:30:10 LEADING:20 TRAILING:20 SLIDINGWINDOW:4:15 MINLEN:36.
Analysis method
featureCounts (version 1.6.3)
Gene count
31,706 genes
Data use policy
NBDC data sharing policy (JGAP000001)

ATAC-seq

Materials and participants
healthy subjects : 5 individuals (4 or 5 samples each)
  • Health status
    Healthy
  • Subject count
    5 (Individual)
Sample description
DNA extracted from monocytes derived from PBMCs
  • Tissue
    Monocyte
  • Tumor / normal
    Normal
Sample provider
N/A
Experimental method
ATAC-seq
Target
N/A
Reagent kit
ATAC-Seq Kit
Fragmentation
Tagmentation (ATAC-Seq Kit)
Platform
Illumina NovaSeq 6000
Read type
Paired-end
Read length
150 bp
Reference genome
GRCh38
Mapping
Bowtie2
QC and filtering
Low-quality (<20) bases and adaptor sequences were trimmed with Trimmomatic software (version 0.38) with the following parameters: ILLUMINACLIP: path/to/adapter.fa:2:30:10 LEADING:20 TRAILING:20 SLIDINGWINDOW:4:15 MINLEN:36.
Analysis method
featureCounts (version 1.6.3)
Peak count
33,548 peaks
Data use policy
NBDC data sharing policy (JGAP000001)