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Dataset ID

NHA000173

Type of data
GWAS for 9 phenotypes
Access criteria
Unrestricted-access
Total data volume
14.3 GB
File formats
  • TXT
  • DOCX
  • ZIP
Research
hum0197
Date published
2022-06-16
Date modified
2022-06-16
Secondary ID
hum0197.v10.gwas.v1

Unrestricted-access files linked to this dataset

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FileLabelSizeCopy URL
ReadMe_hum0197.v10.docxDictionary file23.4 KB
hum0197.v10.AD.BBJ.txt.gzDisease name: atopic dermatitis / Abbreviation: AD / ICD10: L20 / Patients / Controls: 2,472 / 142,192 (BBJ)671 MB
hum0197.v10.AD.UKB.txt.gzDisease name: atopic dermatitis / Abbreviation: AD / ICD10: L20 / Patients / Controls: 12,285 / 291,471 (UKB)917 MB
hum0197.v10.Allergy.ALL.txt.gzDisease name: allergy / Abbreviation: Allergy / ICD10: J45, L20, J301 / Patients / Controls: 95,795 / 433,663 (BBJ+UKB)270 MB
hum0197.v10.Allergy.BBJ.txt.gzDisease name: allergy / Abbreviation: Allergy / ICD10: J45, L20, J301 / Patients / Controls: 14,733 / 142,192 (BBJ)371 MB
hum0197.v10.Allergy.BBJ.v2.txt.gzDisease name: allergy / Abbreviation: Allergy / ICD10: J45, L20, J301 / Patients / Controls: 14,733 / 142,192 (BBJ)415 MB
hum0197.v10.Allergy.UKB.txt.gzDisease name: allergy / Abbreviation: Allergy / ICD10: J45, L20, J301 / Patients / Controls: 81,062 / 291,471 (UKB)478 MB
hum0197.v10.Autoimmune.ALL.txt.gzDisease name: autoimmune / Abbreviation: Autoimmune / ICD10: E050, M05, E10 / Patients / Controls: 11,582 / 433,663 (BBJ+UKB)272 MB
hum0197.v10.Autoimmune.Allergy.ALL.txt.gzDisease name: autoimmune +allergy / Abbreviation: Autoimmune.Allergy / ICD10: J45, L20, J301, E050, M05, E10 / Patients / Controls: 105,721 / 433,663 (BBJ+UKB)271 MB
hum0197.v10.Autoimmune.Allergy.BBJ.txt.gzDisease name: autoimmune +allergy / Abbreviation: Autoimmune.Allergy / ICD10: J45, L20, J301, E050, M05, E10 / Patients / Controls: 19,609 / 142,192 (BBJ)384 MB
hum0197.v10.Autoimmune.Allergy.BBJ.v2.txt.gzDisease name: autoimmune +allergy / Abbreviation: Autoimmune.Allergy / ICD10: J45, L20, J301, E050, M05, E10 / Patients / Controls: 19,609 / 142,192 (BBJ)429 MB
hum0197.v10.Autoimmune.Allergy.UKB.txt.gzDisease name: autoimmune +allergy / Abbreviation: Autoimmune.Allergy / ICD10: J45, L20, J301, E050, M05, E10 / Patients / Controls: 86,112 / 291,471 (UKB)492 MB
hum0197.v10.Autoimmune.BBJ.txt.gzDisease name: autoimmune / Abbreviation: Autoimmune / ICD10: E050, M05, E10 / Patients / Controls: 5,020 / 142,192 (BBJ)374 MB
hum0197.v10.Autoimmune.BBJ.v2.txt.gzDisease name: autoimmune / Abbreviation: Autoimmune / ICD10: E050, M05, E10 / Patients / Controls: 5,020 / 142,192 (BBJ)418 MB
hum0197.v10.Autoimmune.UKB.txt.gzDisease name: autoimmune / Abbreviation: Autoimmune / ICD10: E050, M05, E10 / Patients / Controls: 6,562 / 291,471 (UKB)476 MB
hum0197.v10.BA.BBJ.txt.gzDisease name: asthma / Abbreviation: BA / ICD10: J45 / Patients / Controls: 7,522 / 142,192 (BBJ)673 MB
hum0197.v10.BA.UKB.txt.gzDisease name: asthma / Abbreviation: BA / ICD10: J45 / Patients / Controls: 12,285 / 291,471 (UKB)921 MB
hum0197.v10.GD.BBJ.txt.gzDisease name: Graves' disease / Abbreviation: GD / ICD10: E050 / Patients / Controls: 2,041 / 142,192 (BBJ)672 MB
hum0197.v10.GD.UKB.txt.gzDisease name: Graves' disease / Abbreviation: GD / ICD10: E050 / Patients / Controls: 614 / 291,471 (UKB)868 MB
hum0197.v10.PO.BBJ.txt.gzDisease name: pollinosis / Abbreviation: PO / ICD10: J301 / Patients / Controls: 5,308 / 142,192 (BBJ)672 MB
hum0197.v10.PO.UKB.txt.gzDisease name: pollinosis / Abbreviation: PO / ICD10: J301 / Patients / Controls: 26,758 / 291,471 (UKB)920 MB
hum0197.v10.RA.BBJ.txt.gzDisease name: Rheumatoid arthritis / Abbreviation: RA / ICD10: M05 / Patients / Controls: 2,370 / 142,192 (BBJ)671 MB
hum0197.v10.RA.UKB.txt.gzDisease name: Rheumatoid arthritis / Abbreviation: RA / ICD10: M05 / Patients / Controls: 5,065 / 291,471 (UKB)914 MB
hum0197.v10.T1D.BBJ.txt.gzDisease name: type I diabetes mellitus / Abbreviation: T1D / ICD10: E10 / Patients / Controls: 638 / 142,192 (BBJ)665 MB
hum0197.v10.T1D.UKB.txt.gzDisease name: type I diabetes mellitus / Abbreviation: T1D / ICD10: E10 / Patients / Controls: 914 / 291,471 (UKB)874 MB
hum0197.v10.gwas.GCT.v1.zip228 MB

Analysis method

genome wide SNPs

Materials and participants
Biobank Japan (n=161,801), UK biobank (n=377,583), no. Phenotypes: 9
Patients: Autoimmune [Rheumatoid arthritis (ICD10: M05), Graves' disease (ICD10: E050), type I diabetes mellitus (ICD10: E10)]
Allergy [asthma (ICD10: J45), Atopic dermatitis (ICD10: L20), Pollinosis (ICD10: J301)]
Controls: non-autoimmune +non-allergy individuals
(There is overlap among patients in each disease category)
  • Cohort
    BioBank Japan, UK Biobank
Disease
Rheumatoid arthritis (M05)
Graves' disease (E050)
type I diabetes mellitus (E10)
asthma (J45)
Atopic dermatitis (L20)
Pollinosis (J301)
Sample description
DNAs extracted from peripheral blood cells
  • Tissue
    Peripheral blood
Sample provider
N/A
Experimental method
Genotyping by array
Target
N/A
Platform
Applied Biosystems UK BiLEVE Axiom Array
Applied Biosystems UK Biobank Axiom Array
Illumina HumanExome
Illumina HumanOmniExpress
Illumina HumanOmniExpressExome
QC and filtering
We excluded the variants with Rsq < 0.7 and MAF < 0.005.
Imputation
BBJ: Eagle, Minimac3
UK Biobank: IMPUTE4
Analysis method
SAIGE software was used with age, sex, and top five principal components as covariates.
RE2C software was used for the multi-trait meta-analysis adjusting for sample overlap between GWAS summary data.
Variant count
BBJ (individual trait): 8,374,220 variants (Autosomes)
BBJ (meta-analysis): 8,369,174 variants (Autosomes)
UK Biobank (individual trait): 10,864,380 variants (Autosomes)
UK Biobank (meta-analysis): 10,858,065 variants (Autosomes)
BBJ+UK Biobank (meta-analysis): 5,965,154 variants (Autosomes)
Data use policy
NBDC data sharing policy (JGAP000001)