Trait: refractive error measurement

Experimental Factor Ontology (EFO) Information
Identifier EFO_0007814
Description quantification of some aspect of refractive errors, which occur when the shape of the eye prevents light from focusing directly on the retina. The length of the eyeball (longer or shorter), changes in the shape of the cornea, or aging of the lens can cause refractive errors. Quantification of an individual's refractive error allows the establishemnt of a number of corrective parameters such as spherical equivalent, lens decentration and transposition
Trait category
Other measurement

Associated Polygenic Score(s)

Filter PGS by Participant Ancestry
Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
List of ancestries includes:
Display options:
Ancestry legend
Multi-ancestry (including European)
Multi-ancestry (excluding European)
African
East Asian
South Asian
Additional Asian Ancestries
European
Greater Middle Eastern
Hispanic or Latin American
Additional Diverse Ancestries
Not Reported
Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution Scoring File (FTP Link)
PGS001099
(GBE_INI5085)
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Spherical power (left eye) refractive error measurement 6,639
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001099/ScoringFiles/PGS001099.txt.gz
PGS001100
(GBE_INI5084)
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Spherical power (right eye) refractive error measurement 7,350
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001100/ScoringFiles/PGS001100.txt.gz

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)
Evaluated Score 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
PPM008243 PGS001100
(GBE_INI5084)
PSS007370|
European Ancestry|
16,545 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Spherical power (R) : 0.11691 [0.11236, 0.12147]
Incremental R2 (full-covars): 0.0945
PGS R2 (no covariates): 0.09518 [0.09097, 0.0994]
age, sex, UKB array type, Genotype PCs
PPM008242 PGS001100
(GBE_INI5084)
PSS007369|
South Asian Ancestry|
3,663 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Spherical power (R) : 0.06585 [0.05523, 0.07646]
Incremental R2 (full-covars): 0.0281
PGS R2 (no covariates): 0.03071 [0.02319, 0.03823]
age, sex, UKB array type, Genotype PCs
PPM008241 PGS001100
(GBE_INI5084)
PSS007368|
European Ancestry|
7,920 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Spherical power (R) : 0.10687 [0.09962, 0.11412]
Incremental R2 (full-covars): 0.07031
PGS R2 (no covariates): 0.0711 [0.06495, 0.07725]
age, sex, UKB array type, Genotype PCs
PPM008240 PGS001100
(GBE_INI5084)
PSS007367|
East Asian Ancestry|
597 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Spherical power (R) : 0.1128 [0.08456, 0.14104]
Incremental R2 (full-covars): 0.02771
PGS R2 (no covariates): 0.03839 [0.02053, 0.05624]
age, sex, UKB array type, Genotype PCs
PPM008239 PGS001100
(GBE_INI5084)
PSS007366|
African Ancestry|
3,314 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Spherical power (R) : 0.03542 [0.02659, 0.04424]
Incremental R2 (full-covars): 0.00616
PGS R2 (no covariates): 0.01203 [0.00676, 0.0173]
age, sex, UKB array type, Genotype PCs
PPM008238 PGS001099
(GBE_INI5085)
PSS007375|
European Ancestry|
16,473 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Spherical power (L) : 0.11149 [0.10701, 0.11597]
Incremental R2 (full-covars): 0.09163
PGS R2 (no covariates): 0.09194 [0.08779, 0.0961]
age, sex, UKB array type, Genotype PCs
PPM008237 PGS001099
(GBE_INI5085)
PSS007374|
South Asian Ancestry|
3,648 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Spherical power (L) : 0.05929 [0.04915, 0.06943]
Incremental R2 (full-covars): 0.03026
PGS R2 (no covariates): 0.03238 [0.02467, 0.04009]
age, sex, UKB array type, Genotype PCs
PPM008236 PGS001099
(GBE_INI5085)
PSS007373|
European Ancestry|
7,900 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Spherical power (L) : 0.10172 [0.09461, 0.10884]
Incremental R2 (full-covars): 0.07033
PGS R2 (no covariates): 0.0711 [0.06495, 0.07725]
age, sex, UKB array type, Genotype PCs
PPM008235 PGS001099
(GBE_INI5085)
PSS007372|
East Asian Ancestry|
596 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Spherical power (L) : 0.09829 [0.0715, 0.12508]
Incremental R2 (full-covars): 0.01659
PGS R2 (no covariates): 0.0261 [0.01119, 0.04101]
age, sex, UKB array type, Genotype PCs
PPM008234 PGS001099
(GBE_INI5085)
PSS007371|
African Ancestry|
3,300 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Spherical power (L) : 0.04061 [0.03121, 0.05001]
Incremental R2 (full-covars): 0.00835
PGS R2 (no covariates): 0.01458 [0.00879, 0.02036]
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
PSS007366 3,314 individuals African unspecified UKB
PSS007367 597 individuals East Asian UKB
PSS007368 7,920 individuals European non-white British ancestry UKB
PSS007369 3,663 individuals South Asian UKB
PSS007370 16,545 individuals European white British ancestry UKB Testing cohort (heldout set)
PSS007371 3,300 individuals African unspecified UKB
PSS007372 596 individuals East Asian UKB
PSS007373 7,900 individuals European non-white British ancestry UKB
PSS007374 3,648 individuals South Asian UKB
PSS007375 16,473 individuals European white British ancestry UKB Testing cohort (heldout set)