Polygenic Score (PGS) ID: PGS003496

Predicted Trait
Reported Trait Hair color (natural, before greying)
Mapped Trait(s) hair colour measurement (EFO_0007822)
Released in PGS Catalog: April 12, 2023
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Score Details

Score Construction
PGS Name cont-decay-darker_hair0
Development Method
Name LDpred2-auto
Parameters vec_p_init = seq_log(1e-4, 0.9, length.out = 10), burn_in = 100, num_iter = 500, report_step = 5
Variants
Original Genome Build GRCh37
Number of Variants 979,739
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000457
Citation (link to publication) Ding Y et al. bioRxiv (2022) Preprint
Ancestry Distribution
Score Development/Training
European: 100%
348,526 individuals (100%)
PGS Evaluation
European: 44.4%
African: 22.2%
East Asian: 11.1%
Greater Middle Eastern: 11.1%
South Asian: 11.1%
9 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
— 348,526 individuals,
0.46 % Male samples
 European UKB — Mean = 56.8 years
Sd = 8.0 years		 — white British —

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
PPM017508 PSS010841|
European Ancestry|
3,986 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Hair colour (natural, before greying) — — partial-R2: 0.24 sex, age, deprivation index, PC1-16 —
PPM017592 PSS010673|
European Ancestry|
6,316 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Hair colour (natural, before greying) — — partial-R2: 0.12 sex, age, deprivation index, PC1-16 —
PPM017760 PSS010253|
European Ancestry|
2,281 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Hair colour (natural, before greying) — — partial-R2: 0.16 sex, age, deprivation index, PC1-16 —
PPM017844 PSS010505|
South Asian Ancestry|
6,130 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Hair colour (natural, before greying) — — partial-R2: 0.01 sex, age, deprivation index, PC1-16 —
PPM018096 PSS010757|
African Ancestry|
3,832 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Hair colour (natural, before greying) — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —
PPM017424 PSS010925|
European Ancestry|
18,819 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Hair colour (natural, before greying) — — partial-R2: 0.28 sex, age, deprivation index, PC1-16 —
PPM017676 PSS010589|
Greater Middle Eastern Ancestry|
1,132 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Hair colour (natural, before greying) — — partial-R2: 0.09 sex, age, deprivation index, PC1-16 —
PPM017928 PSS010421|
East Asian Ancestry|
1,785 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Hair colour (natural, before greying) — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —
PPM018012 PSS010337|
African Ancestry|
2,414 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Hair colour (natural, before greying) — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —

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
PSS010337 — — 2,414 individuals,
36.0 % Male samples
 Mean = 52.4 years
Sd = 8.0 years		 African American or Afro-Caribbean Caribbean UKB —
PSS010757 — — 3,832 individuals,
46.0 % Male samples
 Mean = 51.9 years
Sd = 8.1 years		 African unspecified Nigerian UKB —
PSS010505 — — 6,130 individuals,
54.0 % Male samples
 Mean = 53.2 years
Sd = 8.4 years		 South Asian Indian UKB —
PSS010253 — — 2,281 individuals,
45.0 % Male samples
 Mean = 58.0 years
Sd = 7.1 years		 European Ashkenazi UKB —
PSS010925 — — 18,819 individuals,
46.0 % Male samples
 Mean = 56.9 years
Sd = 7.9 years		 European white British UKB —
PSS010673 — — 6,316 individuals,
45.0 % Male samples
 Mean = 54.5 years
Sd = 8.4 years		 European Italian UKB —
PSS010421 — — 1,785 individuals,
33.0 % Male samples
 Mean = 52.4 years
Sd = 7.8 years		 East Asian Chinese UKB —
PSS010841 — — 3,986 individuals,
37.0 % Male samples
 Mean = 54.4 years
Sd = 7.6 years		 European Polish UKB —
PSS010589 — — 1,132 individuals,
59.0 % Male samples
 Mean = 52.1 years
Sd = 8.0 years		 Greater Middle Eastern (Middle Eastern, North African or Persian) Iranian UKB —