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Dataset ID

NHA000201

Type of data
GWAS for 564 children who participated in the adult cohort study
Access criteria
Unrestricted-access
Total data volume
17.0 GB
File formats
  • TXT
  • DOCX
Research
hum0505
Date published
2025-05-30
Date modified
2025-05-30
Secondary ID
hum0505.v1.gwas.v1

Unrestricted-access files linked to this dataset

Download the URL list
Per page
20
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41–49 / 49

FileLabelSizeCopy URL
Phlp4.txtPhl p 4350 MB
Phlp5.txtPhl p 5350 MB
Plaa2.txtPla a 2350 MB
Polygalacturonase.txtPolygalacturonase350 MB
Profilin.txtProfilin350 MB
ReadMe_hum0505.docxDictionary file25.1 KB
Tropomyosin.txtTropomyosin348 MB
Uteroglobin.txtUteroglobin351 MB
total_IgE.txttotal_IgE.txt537 MB

41–49 / 49

Analysis method

Genotyping by array (GWAS)

Materials and participants
564 children who participated in T-child study (a birth cohort study) with ImmunoCAP ISAC sIgE 112 data available at age 9 years
562 children for total serum IgE data
  • Health status
    Mixed
  • Subject count
    564 (Individual)
  • Age group
    Child
Sample description
DNAs extracted from peripheral blood cells or saliva
  • Tissue
    Peripheral blood, Saliva
  • Tumor / normal
    Normal
Sample provider
N/A
Experimental method
Genotyping by array
Target
N/A
Reagent kit
N/A
Platform
Illumina Infinium Asian Screening Array
Reference genome
GRCh37
QC and filtering
Sample QC: We excluded samples based on the following criteria
(1) a call rate of < 98%
(2) outliers from the Japanese ancestry estimated by use of principal-component (PC) analysis using the 1000 Genome Project Phase 3
(3) PI_HAT > 0.1875
(4) phenotype-genotype sex discordance
Genotyping QC: We selected the genotyped variants based on the following criteria
(1) Gentrain score of >= 0.7
(2) minor allele frequency > 1%
(3) variant genotyping call rate > 95%
(4) Hardy-Weinberg-equilibrium P value > 1.0 × 10^-5.
Imputation QC: Rsq > 0.7 and minor allele count >= 20.
Imputation
SHAPEIT2 software and Minimac4 software
Imputation reference: JGAS000114 reference panel (GRCh37)
Variant count
Total IgE: 7,099,279 variants
Excluding total IgE: 6,471,740 variants
Processed data type
GWAS summary statistics
Phenotype data
Included
Data use policy
NBDC data sharing policy (JGAP000001)