Polygenic Score (PGS) ID: PGS001871

Predicted Trait
Reported Trait Psoriasis
Mapped Trait(s) psoriasis (EFO_0000676)
Additional Trait Information dermatologic
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-PLR_696.4
Development Method
Name Penalized regression (bigstatsr)
Parameters HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 264
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
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
391,124 individuals European UKB UK (+ Ireland)

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
PPM009857 PSS009347|
European Ancestry|
19,615 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Psoriasis Partial Correlation (partial-r): 0.0636 [0.0497, 0.0775] sex, age, birth date, deprivation index, 16 PCs
PPM009858 PSS009121|
European Ancestry|
4,059 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Psoriasis Partial Correlation (partial-r): 0.107 [0.0764, 0.1374] sex, age, birth date, deprivation index, 16 PCs
PPM009859 PSS008675|
European Ancestry|
6,554 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Psoriasis Partial Correlation (partial-r): 0.0404 [0.0162, 0.0646] sex, age, birth date, deprivation index, 16 PCs
PPM009860 PSS008449|
Greater Middle Eastern Ancestry|
1,183 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Psoriasis Partial Correlation (partial-r): 0.0463 [-0.0112, 0.1035] sex, age, birth date, deprivation index, 16 PCs
PPM009861 PSS008229|
South Asian Ancestry|
6,161 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Psoriasis Partial Correlation (partial-r): 0.0327 [0.0077, 0.0577] sex, age, birth date, deprivation index, 16 PCs
PPM009862 PSS008010|
East Asian Ancestry|
1,784 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Psoriasis Partial Correlation (partial-r): 0.0079 [-0.0388, 0.0545] sex, age, birth date, deprivation index, 16 PCs
PPM009863 PSS007794|
African Ancestry|
2,398 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Psoriasis Partial Correlation (partial-r): 0.0357 [-0.0045, 0.0757] sex, age, birth date, deprivation index, 16 PCs
PPM009864 PSS008898|
African Ancestry|
3,834 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Psoriasis Partial Correlation (partial-r): -0.0065 [-0.0382, 0.0252] 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
PSS008229 6,161 individuals South Asian India (South Asia) UKB
PSS009347 19,615 individuals European UK (+ Ireland) UKB
PSS008010 1,784 individuals East Asian China (East Asia) UKB
PSS007794 2,398 individuals African American or Afro-Caribbean Carribean UKB
PSS009121 4,059 individuals European Poland (NE Europe) UKB
PSS008449 1,183 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB
PSS008898 3,834 individuals African unspecified Nigeria (West Africa) UKB
PSS008675 6,554 individuals European Italy (South Europe) UKB