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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)
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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

JGAD000876

Type of data
The presence or absence of endogenous herpesvirus 6 and anellovirus load calculated from NGS (WGS) for autoimmune diseases
Raw sequencing data of single-cell RNA-seq
Access criteria
Controlled-access (Type I)
Total data volume
181 GB
File formats
  • FASTQ
  • TSV
Research
hum0197
Date published
2024-11-06
Date modified
2024-11-06
DDBJ Search
JGAD000876 (opens in a new tab)
JGA Study
JGAS000741 (opens in a new tab)

Analysis method

WGS

Materials and participants
Autoimmune diseases (ICD10: L400, M0690, M329, J840, G35): 2,238 cases
Control participants: 2,919
  • Health status
    Affected
  • Subject count
    8 (Individual)
  • Population
    East Asian
Disease
Autoimmune diseases (L400, M069, M329, J840, G35)
Sample description
DNAs extracted from peripheral blood cells
  • Tissue
    PBMC, Peripheral blood
  • Tumor / normal
    Normal
Sample provider
N/A
Experimental method
WGS
Target
N/A
Reagent kit
TruSeq DNA PCR-Free Library Prep Kit
Fragmentation
Ultrasonic fragmentation
Platform
Illumina HiSeq X
Illumina NovaSeq 6000
Read type
Paired-end
Read length
150 bp
QC and filtering
We conducted principal component analysis (PCA) against HapMap3 data using SNP data of the same individuals to confirm the East Asian genetic background.
Analysis method
https://github.com/shohei-kojima/integrated_HHV6_recon
https://github.com/shohei-kojima/human_anellovirus_detection
Refer to the softwares' GitHub repositry.
Processed data type
Anellovirus load
eHHV-6 presence/absence
Phenotype data
Included
Data use policy
NBDC data sharing policy (JGAP000001)

scRNA-seq

Materials and participants
Systemic lupus erythematosus (ICD10: M329): 8 cases
eHHV-6B-positive: 3 cases
eHHV-6B-negative: 5 cases
  • Health status
    Affected
  • Subject count
    8 (Individual)
  • Population
    East Asian
Disease
Systemic lupus erythematosus (M329)
Sample description
RNAs extracted from PBMC
  • Tissue
    PBMC, Peripheral blood
  • Tumor / normal
    Normal
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
91 bp
Processed data type
Anellovirus load
eHHV-6 presence/absence
Phenotype data
Included
Data use policy
NBDC data sharing policy (JGAP000001)