Polygenic Score (PGS) ID: PGS001882

Predicted Trait
Reported Trait Osteoarthrosis
Mapped Trait(s) osteoarthritis (EFO_0002506)
Additional Trait Information musculoskeletal
Released in PGS Catalog: Jan. 10, 2022
Download Score FTP directory
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 portability-PLR_740
Development Method
Name Penalized regression (bigstatsr)
Parameters HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 11,451
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
PPM009940 PSS009359|
European Ancestry|
20,000 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Osteoarthrosis Partial Correlation (partial-r): 0.0409 [0.027, 0.0547] sex, age, birth date, deprivation index, 16 PCs
PPM009941 PSS009133|
European Ancestry|
4,136 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Osteoarthrosis Partial Correlation (partial-r): 0.0415 [0.0109, 0.0719] sex, age, birth date, deprivation index, 16 PCs
PPM009942 PSS008687|
European Ancestry|
6,660 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Osteoarthrosis Partial Correlation (partial-r): 0.0357 [0.0117, 0.0597] sex, age, birth date, deprivation index, 16 PCs
PPM009943 PSS008461|
Greater Middle Eastern Ancestry|
1,200 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Osteoarthrosis Partial Correlation (partial-r): 0.0326 [-0.0246, 0.0895] sex, age, birth date, deprivation index, 16 PCs
PPM009944 PSS008241|
South Asian Ancestry|
6,331 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Osteoarthrosis Partial Correlation (partial-r): 0.0211 [-0.0036, 0.0457] sex, age, birth date, deprivation index, 16 PCs
PPM009945 PSS008019|
East Asian Ancestry|
1,810 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Osteoarthrosis Partial Correlation (partial-r): 0.0051 [-0.0412, 0.0514] sex, age, birth date, deprivation index, 16 PCs
PPM009946 PSS007805|
African Ancestry|
2,484 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Osteoarthrosis Partial Correlation (partial-r): 0.0312 [-0.0083, 0.0706] sex, age, birth date, deprivation index, 16 PCs
PPM009947 PSS008909|
African Ancestry|
3,924 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Osteoarthrosis Partial Correlation (partial-r): 0.0103 [-0.0211, 0.0417] 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
PSS009133 4,136 individuals European Poland (NE Europe) UKB
PSS008461 1,200 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB
PSS008687 6,660 individuals European Italy (South Europe) UKB
PSS009359 20,000 individuals European UK (+ Ireland) UKB
PSS008241 6,331 individuals South Asian India (South Asia) UKB
PSS008909 3,924 individuals African unspecified Nigeria (West Africa) UKB
PSS008019 1,810 individuals East Asian China (East Asia) UKB
PSS007805 2,484 individuals African American or Afro-Caribbean Carribean UKB