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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-344

Type of data
NGS (scRNA-seq)
Access criteria
Unrestricted-access
Total data volume
1.5 MB
File formats
  • TXT
  • TSV
Research
hum0218
Date published
2020-10-10
Date modified
2020-10-10
DDBJ Search
E-GEAD-344 (opens in a new tab)

Analysis method

scRNA-seq

Materials and participants
Systemic sclerosis (ICD10: M340): 3 cases
  • Health status
    Affected
  • Subject count
    3 (Individual)
Disease
  • Systemic sclerosis
Sample description
RNAs extracted from a single cell isolated from peripheral blood monocytes
  • Tissue
    Monocyte, Peripheral blood
  • Tumor / normal
    Normal
Sample provider
N/A
Experimental method
scRNA-seq
Target
N/A
Reagent kit
Nextera XT DNA Library Prep Kit
SMARTer ICELL8 3' DE Reagent Kit
Fragmentation
Nextera XT DNA Library Prep Kit
Platform
Illumina HiSeq
Read type
Paired-end
Read length
Read1: 25 bp
Read2: 100 bp
Reference genome
GRCh38
Mapping
STAR (GRCh38)
QC and filtering
The sequencing primer, poly-A, and poly-T were trimmed by Cutadapt and low-quality ends (phred quality score < 25) were also trimmed. After trimming, the read (the length of which was < 20 bases) was also removed.
Gene count
26,288
Data use policy
NBDC data sharing policy (JGAP000001)