Polygenic Score (PGS) ID: PGS001410

Predicted Trait
Reported Trait Intra-ocular pressure, corneal-compensated (R)
Mapped Trait(s) intraocular pressure measurement (EFO_0004695)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI5254
Released in PGS Catalog: Nov. 25, 2021
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Terms and Licenses
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_INI5254
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 1,563
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%
65,229 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
— 65,229 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
PPM007185 PSS007436|
African Ancestry|
3,254 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Intra-ocular pressure, corneal-compensated (R) — — R²: 0.03133 [0.023, 0.03967]
Incremental R2 (full-covars): 0.00371
PGS R2 (no covariates): 0.00454 [0.00128, 0.0078]		 age, sex, UKB array type, Genotype PCs —
PPM007186 PSS007437|
East Asian Ancestry|
590 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Intra-ocular pressure, corneal-compensated (R) — — R²: 0.03676 [0.01926, 0.05426]
Incremental R2 (full-covars): 0.00553
PGS R2 (no covariates): 0.00565 [-0.00143, 0.01274]		 age, sex, UKB array type, Genotype PCs —
PPM007187 PSS007438|
European Ancestry|
7,821 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Intra-ocular pressure, corneal-compensated (R) — — R²: 0.02457 [0.02077, 0.02837]
Incremental R2 (full-covars): 0.00774
PGS R2 (no covariates): 0.0075 [0.00536, 0.00963]		 age, sex, UKB array type, Genotype PCs —
PPM007188 PSS007439|
South Asian Ancestry|
3,610 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Intra-ocular pressure, corneal-compensated (R) — — R²: 0.02885 [0.02155, 0.03616]
Incremental R2 (full-covars): 0.01476
PGS R2 (no covariates): 0.01471 [0.00942, 0.02]		 age, sex, UKB array type, Genotype PCs —
PPM007189 PSS007440|
European Ancestry|
16,290 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Intra-ocular pressure, corneal-compensated (R) — — R²: 0.037 [0.0342, 0.03979]
Incremental R2 (full-covars): 0.01657
PGS R2 (no covariates): 0.01663 [0.01471, 0.01854]		 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
PSS007436 — — 3,254 individuals — African unspecified — UKB —
PSS007437 — — 590 individuals — East Asian — UKB —
PSS007438 — — 7,821 individuals — European non-white British ancestry UKB —
PSS007439 — — 3,610 individuals — South Asian — UKB —
PSS007440 — — 16,290 individuals — European white British ancestry UKB Testing cohort (heldout set)