Polygenic Score (PGS) ID: PGS001382

Predicted Trait
Reported Trait Corneal resistance factor (L)
Mapped Trait(s) corneal resistance factor (EFO_0010067)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI5265
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_INI5265
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 2,390
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%
65,123 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
— 65,123 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
PPM007215 PSS007471|
African Ancestry|
3,212 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Corneal resistance factor (L) — — R²: 0.0128 [0.00737, 0.01823]
Incremental R2 (full-covars): 0.00811
PGS R2 (no covariates): 0.0089 [0.00436, 0.01345]		 age, sex, UKB array type, Genotype PCs —
PPM007216 PSS007472|
East Asian Ancestry|
583 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Corneal resistance factor (L) — — R²: 0.0417 [0.02316, 0.06025]
Incremental R2 (full-covars): 0.01915
PGS R2 (no covariates): 0.02245 [0.00857, 0.03633]		 age, sex, UKB array type, Genotype PCs —
PPM007217 PSS007473|
European Ancestry|
7,806 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Corneal resistance factor (L) — — R²: 0.04343 [0.03848, 0.04838]
Incremental R2 (full-covars): 0.03796
PGS R2 (no covariates): 0.03864 [0.03394, 0.04333]		 age, sex, UKB array type, Genotype PCs —
PPM007218 PSS007474|
South Asian Ancestry|
3,565 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Corneal resistance factor (L) — — R²: 0.03432 [0.0264, 0.04224]
Incremental R2 (full-covars): 0.0261
PGS R2 (no covariates): 0.02734 [0.02022, 0.03446]		 age, sex, UKB array type, Genotype PCs —
PPM007219 PSS007475|
European Ancestry|
16,274 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Corneal resistance factor (L) — — R²: 0.05817 [0.05474, 0.0616]
Incremental R2 (full-covars): 0.05402
PGS R2 (no covariates): 0.05488 [0.05153, 0.05822]		 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
PSS007471 — — 3,212 individuals — African unspecified — UKB —
PSS007472 — — 583 individuals — East Asian — UKB —
PSS007473 — — 7,806 individuals — European non-white British ancestry UKB —
PSS007474 — — 3,565 individuals — South Asian — UKB —
PSS007475 — — 16,274 individuals — European white British ancestry UKB Testing cohort (heldout set)