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Dataset ID

NHA000162

Type of data
GWAS for 215 phenotypes
Access criteria
Unrestricted-access
Total data volume
567 GB
File formats
  • HTML
  • ZIP
Research
hum0197
Date published
2021-03-22
Date modified
2021-03-22
Secondary ID
hum0197.v3.gwas.v1

Unrestricted-access files linked to this dataset

Download the URL list
Per page
20
2050100

441–460 / 601

FileLabelSizeCopy URL
hum0197.v3.META.Cat.v1.zipDisease name: Cataract / Abbreviation: Cataract / ICD10: H25/H26771 MB
hum0197.v3.META.CeAn.v1.zipDisease name: Cerebral aneurysm / Abbreviation: CeAn / ICD10: I67.1788 MB
hum0197.v3.META.CeC.v1.zipDisease name: Cervical cancer / Abbreviation: CeC / ICD10: C53791 MB
hum0197.v3.META.ChG.v1.zipDisease name: Chronic glomerulonephritis / Abbreviation: Chronic_Glomerulonephritis / ICD10: N03795 MB
hum0197.v3.META.ChP.v1.zipDisease name: Chronic pancreatitis / Abbreviation: Chronic_Pancreatitis / ICD10: K86790 MB
hum0197.v3.META.ChS.v1.zipDisease name: Chronic sinusitis / Abbreviation: Chronic_Sinusitis / ICD10: J32778 MB
hum0197.v3.META.Cho.v1.zipDisease name: Cholecystitis / Abbreviation: Cholecystitis / ICD10: K80.0/K80.1/K80.4/K81782 MB
hum0197.v3.META.Cir.v1.zipDisease name: Cirrhosis / Abbreviation: Cirrhosis / ICD10: K74.6621 MB
hum0197.v3.META.Co.v1.zipDisease name: Constipation / Abbreviation: Constipation / ICD10: K59.0781 MB
hum0197.v3.META.Cys.v1.zipDisease name: Cystitis / Abbreviation: Cystitis / ICD10: N30.0782 MB
hum0197.v3.META.DBP.v1.zipCategory: Blood pressure / Trait name: Diastolic blood pressure / Abbreviation: DBP441 MB
hum0197.v3.META.DC.v1.zipDisease name: Dilated cardiomyopathy / Abbreviation: Dilated_Cardiomyopathy / ICD10: I42.0622 MB
hum0197.v3.META.DN.v1.zipDisease name: Diabetic nephropathy / Abbreviation: DM_Nephropathy / ICD10: E11.2793 MB
hum0197.v3.META.Dep.v1.zipDisease name: Depression / Abbreviation: Depression / ICD10: F33779 MB
hum0197.v3.META.Dip.v1.zipDisease name: Diphtheria infection / Abbreviation: Diphtheria / ICD10: A36615 MB
hum0197.v3.META.Dys.v1.zipDisease name: Dysentery / Abbreviation: Dysentery / ICD10: A03.9620 MB
hum0197.v3.META.EC.v1.zipDisease name: Esophageal cancer / Abbreviation: EsC / ICD10: C15792 MB
hum0197.v3.META.EM.v1.zipDisease name: Endometriosis / Abbreviation: Endometriosis / ICD10: N80782 MB
hum0197.v3.META.EOS.v1.zipCategory: Blood cell / Trait name: Eosinophil / Abbreviation: EOS440 MB
hum0197.v3.META.EV.v1.zipDisease name: Esophageal varix / Abbreviation: Esophageal_varix / ICD10: I85793 MB

441–460 / 601

Analysis method

genome wide SNPs

Materials and participants
Biobank Japan (n = 179,000), UK biobank (n = 361,000), FinnGen (n = 136,000), no. Phenotypes: 220
  • Health status
    Mixed
  • Subject count
    676,000 (Individual)
  • Cohort
    BioBank Japan, FinnGen, UK Biobank
  • Population
    British, Finnish, Japanese
Sample description
DNAs extracted from peripheral blood cells
  • Tissue
    Peripheral blood
  • Tumor / normal
    Normal
Sample provider
N/A
Experimental method
Genotyping by array
Target
N/A
Reagent kit
FinnGen1 ThermoFisher Array
HumanExome BeadChip Kit
HumanOmniExpress BeadChip Kit
HumanOmniExpressExome BeadChip Kit
UK BiLEVE Axiom Array
UK Biobank Axiom Array
Platform
Applied Biosystems UK BiLEVE Axiom Array
Applied Biosystems UK Biobank Axiom Array
Illumina HumanExome
Illumina HumanOmniExpress
Illumina HumanOmniExpressExome
Thermo Fisher Scientific FinnGen1 ThermoFisher Array
QC and filtering
BBJ: We included imputed variants with Rsq > 0.7.
UK Biobank: We excluded the variants with (i) INFO score ≤ 0.8, (ii) MAF ≤ 0.0001 (except for missense and protein-truncating variants annotated by VEP, which were excluded if MAF ≤ 1 × 10-6), and (iii) PHWE ≤ 1 × 10-10.
FinnGen: We excluded variants with an imputation INFO score < 0.8 or MAF < 0.0001.
Imputation
BBJ: Eagle, Minimac3
UK Biobank: IMPUTE4
FinnGen: beagle4.1
Analysis method
For binary traits, SAIGE software was used with age, age2, sex, age×sex, age2×sex, and top 20 principal components as covariates. For quantitative traits (biomarkers), BOLT-LMM or plink software was used with the same covariates.
Variant count
BBJ: 13,530,797 variants
UK Biobank: 13,791,467 variants
FinnGen: 16,859,359 variants
Phenotype data
Included
Data use policy
NBDC data sharing policy (JGAP000001)