Polygenic Score (PGS) ID: PGS001372

Predicted Trait
Reported Trait Age hayfever or allergic rhinitis diagnosed by doctor
Mapped Trait(s) allergic disease (MONDO_0005271)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI22146
Released in PGS Catalog: Nov. 25, 2021
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PGS obtained from the Catalog should be cited appropriately, and used in accordance with any licensing restrictions set by the authors. See EBI Terms of Use (https://www.ebi.ac.uk/about/terms-of-use/) for additional details.

Score Details

Score Construction
PGS Name GBE_INI22146
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 255
Effect Weight Type NR
PGS Source
PGS Catalog Publication (PGP) ID PGP000244
Citation (link to publication) Tanigawa Y et al. PLoS Genet (2022)
Ancestry Distribution
Score Development/Training
European: 100%
15,686 individuals (100%)
PGS Evaluation
European: 40%
African: 20%
East Asian: 20%
South Asian: 20%
5 Sample Sets

Development Samples

Score Development/Training
Study Identifiers Sample Numbers Sample Ancestry Cohort(s) Phenotype Definitions & Methods Age of Study Participants Participant Follow-up Time Additional Ancestry Description Additional Sample/Cohort Information
— 15,686 individuals European UKB — — — white British ancestry Training + validation cohort (train_val)

Performance Metrics

Disclaimer: The performance metrics are displayed as reported by the source studies. It is important to note that metrics are not necessarily comparable with each other. For example, metrics depend on the sample characteristics (described by the PGS Catalog Sample Set [PSS] ID), phenotyping, and statistical modelling. Please refer to the source publication for additional guidance on performance.

PGS Performance
Metric ID (PPM) 		PGS Sample Set ID
(PSS) 		Performance Source Trait PGS Effect Sizes
(per SD change) 		Classification Metrics Other Metrics Covariates Included in the Model PGS Performance:
Other Relevant Information
PPM005290 PSS004956|
African Ancestry|
170 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Age hayfever or allergic rhinitis diagnosed by doctor — — R²: 0.13957 [0.12394, 0.15519]
Incremental R2 (full-covars): -0.01335
PGS R2 (no covariates): 0.00276 [0.00021, 0.00531]		 age, sex, UKB array type, Genotype PCs —
PPM005291 PSS004957|
East Asian Ancestry|
106 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Age hayfever or allergic rhinitis diagnosed by doctor — — R²: 0.0439 [0.02492, 0.06289]
Incremental R2 (full-covars): -0.00185
PGS R2 (no covariates): 0.00016 [-0.00104, 0.00135]		 age, sex, UKB array type, Genotype PCs —
PPM005292 PSS004958|
European Ancestry|
1,421 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Age hayfever or allergic rhinitis diagnosed by doctor — — R²: 0.098 [0.09099, 0.10502]
Incremental R2 (full-covars): 0.00684
PGS R2 (no covariates): 0.00657 [0.00457, 0.00857]		 age, sex, UKB array type, Genotype PCs —
PPM005293 PSS004959|
South Asian Ancestry|
187 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Age hayfever or allergic rhinitis diagnosed by doctor — — R²: 0.20226 [0.18637, 0.21814]
Incremental R2 (full-covars): 0.01767
PGS R2 (no covariates): 0.01185 [0.00708, 0.01661]		 age, sex, UKB array type, Genotype PCs —
PPM005294 PSS004960|
European Ancestry|
3,857 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Age hayfever or allergic rhinitis diagnosed by doctor — — R²: 0.08334 [0.07935, 0.08734]
Incremental R2 (full-covars): 0.00599
PGS R2 (no covariates): 0.00511 [0.00404, 0.00619]		 age, sex, UKB array type, Genotype PCs —

Evaluated Samples

PGS Sample Set ID
(PSS) 		Phenotype Definitions and Methods Participant Follow-up Time Sample Numbers Age of Study Participants Sample Ancestry Additional Ancestry Description Cohort(s) Additional Sample/Cohort Information
PSS004956 — — 170 individuals — African unspecified — UKB —
PSS004957 — — 106 individuals — East Asian — UKB —
PSS004958 — — 1,421 individuals — European non-white British ancestry UKB —
PSS004959 — — 187 individuals — South Asian — UKB —
PSS004960 — — 3,857 individuals — European white British ancestry UKB Testing cohort (heldout set)