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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

E-GEAD-1251

Type of data
Integrated single-cell object data of PBMCs from 20 MS patients
Access criteria
Unrestricted-access
Total data volume
722 MB
File formats
  • TXT
  • H5AD
Research
hum0197
Date published
2026-08-03
Date modified
2026-08-03
DDBJ Search
E-GEAD-1251 (opens in a new tab)

Analysis method

scRNA-seq

Materials and participants
MS (ICD10: G35): 20 cases
  • Health status
    Affected
  • Subject count
    20 (Individual)
Disease
MS (G35)
Sample description
RNAs extracted from PBMC
  • Tissue
    PBMC, Peripheral blood
Sample provider
N/A
Experimental method
scRNA-seq
Target
N/A
Reagent kit
Chromium Next GEM Chip G Single Cell Kit
Chromium Next GEM Single Cell 5' v1.1
Single Index Kit T Set A
Fragmentation
Enzymatic fragmentation
Platform
Illumina NovaSeq 6000
Read type
Paired-end
Read length
90 bp
Reference genome
GRCh38
Mapping
STAR
QC and filtering
We processed them with the remove-background function of CellBender (v0.1.0) to remove cell-free ambient RNAs in the droplets and call cells. We removed cells that had fewer than 500 UMIs, fewer than 200 feature counts in each sample, greater than 10% of reads from mitochondrial genes, or greater than 10% of reads from hemoglobin genes. Additionally, putative doublets were removed using Scrublet (v0.2.3) and scds (v1.18.0) for each sample.
Analysis method
Cell Ranger v7
Gene count
36,601 genes
Data use policy
NBDC data sharing policy (JGAP000001)