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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

NHA000088

Type of data
GWAS for height
Access criteria
Unrestricted-access
Total data volume
679 MB
File formats
  • HTML
  • ZIP
Research
hum0014
Date published
2019-09-27
Date modified
2019-09-27
Secondary ID
hum0014.v15.ht.v1

Unrestricted-access files linked to this dataset

Download the URL list
FileLabelSizeCopy URL
README_2019_BBJ_Height_GWAS.htmlDictionary file27.2 KB
hum0014.v15.ht.v1.zip679 MB

Analysis method

Genotyping by array (GWAS)

Materials and participants
159,095 individuals (Male: 86,257, Female: 72,838)
  • Cohort
    BioBank Japan
  • Sex
    Mixed
Sample description
gDNA extracted from peripheral blood cells
  • Tissue
    Peripheral blood
Sample provider
N/A
Experimental method
Genotyping by array
Target
N/A
Platform
Illumina HumanExome
Illumina HumanOmniExpress
Illumina HumanOmniExpressExome
Reference genome
GRCh37
QC and filtering
Sample QCs: Exclusion criteria:
1) call rate < 98%,
2) closely related samples (PI_HAT > 0.175), and
3) outlier from Japanese cluster determined by PCA using GCTA.
QC after imputation: Variants with imputation quality of Rsq < 0.3 were excluded.
Imputation
Minimac3 [imputation reference panel using WGS data of the biobank Japan project (N=1,037) and 1KGP p3v5 ALL (N=2,504)]
Variant count
Autosomes: 27,211,524 variants
Male X chromosome: 684,533 variants
Female X chromosome: 684,533 variants
Data use policy
NBDC data sharing policy (JGAP000001)