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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

361–380 / 601

FileLabelSizeCopy URL
hum0197.v3.EUR.SS.v1.zipDisease name: Sjogren's syndrome / Abbreviation: Sjogren_Syndrome / ICD10: M35.0526 MB
hum0197.v3.EUR.Sar.v1.zipDisease name: Sarcoidosis / Abbreviation: Sarcoidosis / ICD10: D86524 MB
hum0197.v3.EUR.Sch.v1.zipDisease name: Schizophrenia / Abbreviation: Schizophrenia / ICD10: F20521 MB
hum0197.v3.EUR.SkC.v1.zipDisease name: Skin cancer / Abbreviation: SkC / ICD10: C43/C44517 MB
hum0197.v3.EUR.T1D.v1.zipDisease name: Type 1 diabetes / Abbreviation: T1D / ICD10: E10523 MB
hum0197.v3.EUR.T2D.v1.zipDisease name: Type 2 diabetes / Abbreviation: T2D / ICD10: E11513 MB
hum0197.v3.EUR.TS.v1.zipDisease name: Toxic epidermal necrolysis/Stevens-Johnson syndrome / Abbreviation: TEN_SJS / ICD10: L51.1/L51.2531 MB
hum0197.v3.EUR.Tat.v1.zipDisease name: Tattoo / Abbreviation: Tattoo / ICD10: L81.81.5 GB
hum0197.v3.EUR.ThC.v1.zipDisease name: Thyroid cancer / Abbreviation: ThC / ICD10: C73528 MB
hum0197.v3.EUR.Ton.v1.zipDisease name: Tonsillitis / Abbreviation: Tonsillitis / ICD10: J03518 MB
hum0197.v3.EUR.Typ.v1.zipDisease name: Typhoid fever / Abbreviation: Typhoid / ICD10: A01.01.6 GB
hum0197.v3.EUR.UAP.v1.zipDisease name: Unstable angina pectoris / Abbreviation: UAP / ICD10: I20.0519 MB
hum0197.v3.EUR.UC.v1.zipDisease name: Ulcerative colitis / Abbreviation: UC / ICD10: K51520 MB
hum0197.v3.EUR.UF.v1.zipDisease name: Uterine fibroid / Abbreviation: UF / ICD10: D25514 MB
hum0197.v3.EUR.UP.v1.zipDisease name: Uterine prolapse / Abbreviation: Uterine_prolapse / ICD10: N81.2/N81.3/N81.4516 MB
hum0197.v3.EUR.Uro.v1.zipDisease name: Urolithiasis / Abbreviation: Urolithiasis / ICD10: N20.0/N20.2520 MB
hum0197.v3.EUR.Urt.v1.zipDisease name: Urticaria / Abbreviation: Urticaria / ICD10: L50527 MB
hum0197.v3.EUR.Uve.v1.zipDisease name: Uveitis / Abbreviation: Uveitis / ICD10: H20522 MB
hum0197.v3.EUR.VA.v1.zipDisease name: Ventricular arrhythmia / Abbreviation: Ventricular_Arrhythmia / ICD10: I47.2/I49.0/I49.31.5 GB
hum0197.v3.EUR.Var.v1.zipDisease name: Varicose / Abbreviation: Varicose / ICD10: I83515 MB

361–380 / 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)