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

NHA000172

Type of data
eQTL/sQTL summary statistics for COVID-19
Access criteria
Unrestricted-access
Total data volume
749 MB
File formats
  • TXT
  • ZIP
Research
hum0343
Date published
2022-06-14
Date modified
2022-06-14
Secondary ID
hum0343.v2.qtl.v1

Unrestricted-access files linked to this dataset

Download the URL list
FileLabelSizeCopy URL
hum0343.v2.qtl.v1.zip749 MB
taskforce_rna_releasedata_readme.txtDictionary file3.0 KB

Analysis method

eQTL/sQTL summary statistics

Materials and participants
COVID-19 (ICD-10: U071): 465 cases (severe cases: 359, mild case: 106)
  • Health status
    Affected
  • Subject count
    465 (Individual)
Disease
COVID-19 (U071)
Sample description
read count data of RNA-seq and SNP array data of GWAS
Experimental method
eQTL
sQTL
Platform
Illumina Infinium Asian Screening Array
Illumina NovaSeq 6000
QC and filtering
Following GTEx pipeline (https://github.com/broadinstitute/gtex-pipeline/)
Analysis method
Gene level quantification and normalization: RSEM (v1.3.3)
Intron cluster quantification: LeafCutter (v0.2.7)
The eQTL effects of common (>1%) variants in cis (<+-1Mb) window of transcription sites were tested using fastQTL. Variant-gene pairs with cis-eQTL p-value<0.05, annotated with allele frequency (AF), p-value, effect size (beta) and posterior inclusion probability (PIP) were summarized.
Trans-eQTL effects were tested using tensorQTL. Variant-gene pairs with trans-eQTL p-value <5*10^-8, annotated with AF, p-value and beta were summarized.
The sQTL effects of common (>1%) variants in cis (<+-1Mb) window of intron cluster start sites were tested using fastQTL. Variant-intron cluster pairs with cis-sQTL p-value<0.05, annotated with AF, p-value, beta and PIP were summarized.
Processed data type
eQTL summary statistics
sQTL summary statistics
Data use policy
NBDC data sharing policy (JGAP000001)