Polygenic Score (PGS) ID: PGS002109

Predicted Trait
Reported Trait Hair color (natural, before greying)
Mapped Trait(s) hair colour measurement (EFO_0007822)
Additional Trait Information physical measures
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-ldpred2_darker_hair0
Development Method
Name LDpred2 (bigsnpr)
Parameters LDpred2-auto using HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 393,500
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
PPM011727 PSS009392|
European Ancestry|
18,840 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Hair colour (natural, before greying) — — Partial Correlation (partial-r): 0.4937 [0.4828, 0.5044] sex, age, birth date, deprivation index, 16 PCs —
PPM011728 PSS009166|
European Ancestry|
3,985 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Hair colour (natural, before greying) — — Partial Correlation (partial-r): 0.4622 [0.4373, 0.4863] sex, age, birth date, deprivation index, 16 PCs —
PPM011729 PSS008720|
European Ancestry|
6,455 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Hair colour (natural, before greying) — — Partial Correlation (partial-r): 0.3957 [0.3749, 0.4161] sex, age, birth date, deprivation index, 16 PCs —
PPM011730 PSS008494|
Greater Middle Eastern Ancestry|
1,131 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Hair colour (natural, before greying) — — Partial Correlation (partial-r): 0.2705 [0.2152, 0.3242] sex, age, birth date, deprivation index, 16 PCs —
PPM011731 PSS008272|
South Asian Ancestry|
6,130 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Hair colour (natural, before greying) — — Partial Correlation (partial-r): 0.1004 [0.0755, 0.1251] sex, age, birth date, deprivation index, 16 PCs —
PPM011732 PSS008049|
East Asian Ancestry|
1,782 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Hair colour (natural, before greying) — — Partial Correlation (partial-r): 0.0167 [-0.03, 0.0634] sex, age, birth date, deprivation index, 16 PCs —
PPM011733 PSS007836|
African Ancestry|
2,414 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Hair colour (natural, before greying) — — Partial Correlation (partial-r): 0.1104 [0.0706, 0.1498] sex, age, birth date, deprivation index, 16 PCs —
PPM011734 PSS008940|
African Ancestry|
3,832 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Hair colour (natural, before greying) — — Partial Correlation (partial-r): 0.0397 [0.0079, 0.0713] 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
PSS008940 — — 3,832 individuals — African unspecified Nigeria (West Africa) UKB —
PSS009166 — — 3,985 individuals — European Poland (NE Europe) UKB —
PSS008494 — — 1,131 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS008272 — — 6,130 individuals — South Asian India (South Asia) UKB —
PSS009392 — — 18,840 individuals — European UK (+ Ireland) UKB —
PSS008720 — — 6,455 individuals — European Italy (South Europe) UKB —
PSS008049 — — 1,782 individuals — East Asian China (East Asia) UKB —
PSS007836 — — 2,414 individuals — African American or Afro-Caribbean Carribean UKB —