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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

581–600 / 601

FileLabelSizeCopy URL
hum0197.v3.META.TC.v1.zipCategory: Metabolic / Trait name: Total cholesterol / Abbreviation: TC432 MB
hum0197.v3.META.TG.v1.zipCategory: Metabolic / Trait name: Triglycerides / Abbreviation: TG432 MB
hum0197.v3.META.TP.v1.zipCategory: Protein / Trait name: Total protein / Abbreviation: TP433 MB
hum0197.v3.META.TS.v1.zipDisease name: Toxic epidermal necrolysis/Stevens-Johnson syndrome / Abbreviation: TEN_SJS / ICD10: L51.1/L51.2799 MB
hum0197.v3.META.Tat.v1.zipDisease name: Tattoo / Abbreviation: Tattoo / ICD10: L81.8624 MB
hum0197.v3.META.ThC.v1.zipDisease name: Thyroid cancer / Abbreviation: ThC / ICD10: C73793 MB
hum0197.v3.META.Ton.v1.zipDisease name: Tonsillitis / Abbreviation: Tonsillitis / ICD10: J03784 MB
hum0197.v3.META.Typ.v1.zipDisease name: Typhoid fever / Abbreviation: Typhoid / ICD10: A01.0621 MB
hum0197.v3.META.UA.v1.zipCategory: Kidney-related / Trait name: Uric acids / Abbreviation: UA431 MB
hum0197.v3.META.UAP.v1.zipDisease name: Unstable angina pectoris / Abbreviation: UAP / ICD10: I20.0779 MB
hum0197.v3.META.UC.v1.zipDisease name: Ulcerative colitis / Abbreviation: UC / ICD10: K51786 MB
hum0197.v3.META.UF.v1.zipDisease name: Uterine fibroid / Abbreviation: UF / ICD10: D25772 MB
hum0197.v3.META.UP.v1.zipDisease name: Uterine prolapse / Abbreviation: Uterine_prolapse / ICD10: N81.2/N81.3/N81.4780 MB
hum0197.v3.META.Uro.v1.zipDisease name: Urolithiasis / Abbreviation: Urolithiasis / ICD10: N20.0/N20.2778 MB
hum0197.v3.META.Urt.v1.zipDisease name: Urticaria / Abbreviation: Urticaria / ICD10: L50784 MB
hum0197.v3.META.Uve.v1.zipDisease name: Uveitis / Abbreviation: Uveitis / ICD10: H20789 MB
hum0197.v3.META.VA.v1.zipDisease name: Ventricular arrhythmia / Abbreviation: Ventricular_Arrhythmia / ICD10: I47.2/I49.0/I49.3619 MB
hum0197.v3.META.Var.v1.zipDisease name: Varicose / Abbreviation: Varicose / ICD10: I83780 MB
hum0197.v3.META.WBC.v1.zipCategory: Blood cell / Trait name: White blood cell / Abbreviation: WBC441 MB
hum0197.v3.META.Zos.v1.zipDisease name: Zoster infection / Abbreviation: Zoster / ICD10: B02619 MB

581–600 / 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)