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
| File | Label | Size | Copy URL |
|---|---|---|---|
| 2Salbumin.txt | 2S albumin | 349 MB | |
| 7Sglobulin.txt | 7S globulin | 350 MB | |
| Alng1.txt | Aln g 1 | 350 MB | |
| Alta1.txt | Alt a 1 | 348 MB | |
| Amba1.txt | Amb a 1 | 350 MB | |
| Arah8.txt | Ara h 8 | 350 MB | |
| Argininekinase.txt | Arginine kinase | 348 MB | |
| Berberinebridgeenzyme.txt | Berberine bridge enzyme | 350 MB | |
| Betaexpansin.txt | Beta expansin | 351 MB | |
| Betv1.txt | Bet v 1 | 351 MB | |
| Betv2.txt | Bet v 2 | 350 MB | |
| Blot5.txt | Blo t 5 | 350 MB | |
| Canf1.txt | Can f 1 | 350 MB | |
| Cora1.0101.txt | Cor a 1.0101 | 350 MB | |
| Cora1.0401.txt | Cor a 1.0401 | 351 MB | |
| Cryj1.txt | Cry j 1 | 352 MB | |
| Cupa1.txt | Cup a 1 | 352 MB | |
| Cynd1.txt | Cyn d 1 | 351 MB | |
| Cysteinprotease.txt | Cystein protease | 352 MB | |
| Derf1.txt | Der f 1 | 352 MB | |
| Derf2.txt | Der f 2 | 352 MB | |
| Derp1.txt | Der p 1 | 352 MB | |
| Derp2.txt | Der p 2 | 352 MB | |
| Feld1.txt | Fel d 1 | 351 MB | |
| Feld4.txt | Fel d 4 | 348 MB | |
| Glym4.txt | Gly m 4 | 350 MB | |
| Grassgroup5.txt | Grass group 5 | 350 MB | |
| Hevb8.txt | Hev b 8 | 350 MB | |
| Jugr2.txt | Jug r 2 | 350 MB | |
| Lepd2.txt | Lep d 2 | 350 MB | |
| Lipocalin.txt | Lipocalin | 350 MB | |
| Mald1.txt | Mal d 1 | 350 MB | |
| Mera1.txt | Mer a 1 | 350 MB | |
| Mitegroup5_ | Mite group 5/21 | 350 MB | |
| NPC2family.txt | NPC2 family | 352 MB | |
| PR-10Protein.txt | PR-10 Protein | 351 MB | |
| Pectatelyase.txt | Pectate lyase | 352 MB | |
| Penm2.txt | Pen m 2 | 348 MB | |
| Phlp1.txt | Phl p 1 | 350 MB | |
| Phlp12.txt | Phl p 12 | 349 MB | |
| Phlp4.txt | Phl p 4 | 350 MB | |
| Phlp5.txt | Phl p 5 | 350 MB | |
| Plaa2.txt | Pla a 2 | 350 MB | |
| Polygalacturonase.txt | Polygalacturonase | 350 MB | |
| Profilin.txt | Profilin | 350 MB | |
| ReadMe_ | Dictionary file | 25.1 KB | |
| Tropomyosin.txt | Tropomyosin | 348 MB | |
| Uteroglobin.txt | Uteroglobin | 351 MB | |
| total_ | total_IgE.txt | 537 MB |
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 statusMixed
- Subject count564 (Individual)
- Age groupChild
- Sample description
- DNAs extracted from peripheral blood cells or saliva
- TissuePeripheral blood, Saliva
- Tumor / normalNormal
- 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)