Polygenic Score (PGS) ID: PGS001994

Predicted Trait
Reported Trait Myopia diagnosis
Mapped Trait(s) Myopia (HP_0000545)
Additional Trait Information physical measures
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-PLR_myopia
Development Method
Name Penalized regression (bigstatsr)
Parameters HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 30,217
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000263
Citation (link to publication) Privé F et al. Am J Hum Genet (2022)
Ancestry Distribution
Score Development/Training
European: 100%
391,124 individuals (100%)
PGS Evaluation
European: 37.5%
African: 25%
East Asian: 12.5%
Greater Middle Eastern: 12.5%
South Asian: 12.5%
8 Sample Sets

Development Samples

Score Development/Training
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
391,124 individuals European UK (+ Ireland) UKB

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
PPM010827 PSS009477|
European Ancestry|
4,226 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Myopia diagnosis Partial Correlation (partial-r): 0.2396 [0.2109, 0.2678] sex, age, birth date, deprivation index, 16 PCs
PPM010828 PSS009251|
European Ancestry|
1,151 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Myopia diagnosis Partial Correlation (partial-r): 0.2489 [0.1934, 0.3028] sex, age, birth date, deprivation index, 16 PCs
PPM010829 PSS008805|
European Ancestry|
2,021 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Myopia diagnosis Partial Correlation (partial-r): 0.2062 [0.1638, 0.2477] sex, age, birth date, deprivation index, 16 PCs
PPM010830 PSS008579|
Greater Middle Eastern Ancestry|
441 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Myopia diagnosis Partial Correlation (partial-r): 0.1836 [0.0896, 0.2744] sex, age, birth date, deprivation index, 16 PCs
PPM010831 PSS008357|
South Asian Ancestry|
2,654 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Myopia diagnosis Partial Correlation (partial-r): 0.1747 [0.1374, 0.2115] sex, age, birth date, deprivation index, 16 PCs
PPM010832 PSS008134|
East Asian Ancestry|
649 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Myopia diagnosis Partial Correlation (partial-r): 0.1474 [0.07, 0.223] sex, age, birth date, deprivation index, 16 PCs
PPM010833 PSS007921|
African Ancestry|
1,344 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Myopia diagnosis Partial Correlation (partial-r): 0.1168 [0.0633, 0.1696] sex, age, birth date, deprivation index, 16 PCs
PPM010834 PSS009025|
African Ancestry|
1,916 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Myopia diagnosis Partial Correlation (partial-r): 0.0701 [0.0251, 0.1147] sex, age, birth date, deprivation index, 16 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
PSS009477 4,226 individuals European UK (+ Ireland) UKB
PSS008805 2,021 individuals European Italy (South Europe) UKB
PSS008357 2,654 individuals South Asian India (South Asia) UKB
PSS008134 649 individuals East Asian China (East Asia) UKB
PSS007921 1,344 individuals African American or Afro-Caribbean Carribean UKB
PSS009025 1,916 individuals African unspecified Nigeria (West Africa) UKB
PSS009251 1,151 individuals European Poland (NE Europe) UKB
PSS008579 441 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB