Polygenic Score (PGS) ID: PGS001937

Predicted Trait
Reported Trait Ease of skin tanning
Mapped Trait(s) suntan (EFO_0004279)
Additional Trait Information physical measures
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-PLR_less_tanned
Development Method
Name Penalized regression (bigstatsr)
Parameters HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 16,197
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
PPM010371 PSS009424|
European Ancestry|
19,578 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Ease of skin tanning — — Partial Correlation (partial-r): 0.4089 [0.3972, 0.4205] sex, age, birth date, deprivation index, 16 PCs —
PPM010372 PSS009198|
European Ancestry|
3,995 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Ease of skin tanning — — Partial Correlation (partial-r): 0.3298 [0.3018, 0.3572] sex, age, birth date, deprivation index, 16 PCs —
PPM010373 PSS008752|
European Ancestry|
6,490 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Ease of skin tanning — — Partial Correlation (partial-r): 0.3092 [0.287, 0.3311] sex, age, birth date, deprivation index, 16 PCs —
PPM010374 PSS008526|
Greater Middle Eastern Ancestry|
996 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Ease of skin tanning — — Partial Correlation (partial-r): 0.0834 [0.0207, 0.1454] sex, age, birth date, deprivation index, 16 PCs —
PPM010375 PSS008304|
South Asian Ancestry|
5,414 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Ease of skin tanning — — Partial Correlation (partial-r): 0.0218 [-0.0049, 0.0484] sex, age, birth date, deprivation index, 16 PCs —
PPM010376 PSS008081|
East Asian Ancestry|
1,651 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Ease of skin tanning — — Partial Correlation (partial-r): -0.0042 [-0.0527, 0.0443] sex, age, birth date, deprivation index, 16 PCs —
PPM010377 PSS007868|
African Ancestry|
2,004 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Ease of skin tanning — — Partial Correlation (partial-r): -0.0432 sex, age, birth date, deprivation index, 16 PCs —
PPM010378 PSS008972|
African Ancestry|
2,347 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Ease of skin tanning — — Partial Correlation (partial-r): -0.0234 [-0.064, 0.0172] 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
PSS008972 — — 2,347 individuals — African unspecified Nigeria (West Africa) UKB —
PSS009198 — — 3,995 individuals — European Poland (NE Europe) UKB —
PSS008526 — — 996 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS008752 — — 6,490 individuals — European Italy (South Europe) UKB —
PSS008304 — — 5,414 individuals — South Asian India (South Asia) UKB —
PSS009424 — — 19,578 individuals — European UK (+ Ireland) UKB —
PSS008081 — — 1,651 individuals — East Asian China (East Asia) UKB —
PSS007868 — — 2,004 individuals — African American or Afro-Caribbean Carribean UKB —