Polygenic Score (PGS) ID: PGS001098

Predicted Trait
Reported Trait Hair color, red
Mapped Trait(s) strand of hair color (OBA_0002313)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/BIN_FC2001747
Released in PGS Catalog: Oct. 21, 2021
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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 GBE_BIN_FC2001747
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 1,621
Effect Weight Type NR
PGS Source
PGS Catalog Publication (PGP) ID PGP000244
Citation (link to publication) Tanigawa Y et al. PLoS Genet (2022)
Ancestry Distribution
Score Development/Training
European: 100%
269,201 individuals (100%)
PGS Evaluation
European: 66.7%
African: 33.3%
3 Sample Sets

Development Samples

Score Development/Training
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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
—
[
  • 12,353 cases
  • , 256,848 controls
]
EuropeanUKB———white British ancestry—
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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.

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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
PPM008231PSS003840|
African Ancestry|
6,395 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Hair colour (natural, before greying) red—AUROC: 0.66297 [0.41942, 0.90653]R²: 0.03161
Incremental AUROC (full-covars): -0.14372
PGS R2 (no covariates): 0.01304
PGS AUROC (no covariates): 0.33718 [0.05268, 0.62169]		age, sex, UKB array type, Genotype PCsFull Model & PGS R2 is estimated using Nagelkerke's method
PPM008232PSS003841|
European Ancestry|
24,865 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Hair colour (natural, before greying) red—AUROC: 0.95374 [0.94735, 0.96013]R²: 0.57916
Incremental AUROC (full-covars): 0.27252
PGS R2 (no covariates): 0.58427
PGS AUROC (no covariates): 0.95332 [0.94681, 0.95982]		age, sex, UKB array type, Genotype PCsFull Model & PGS R2 is estimated using Nagelkerke's method
PPM008233PSS003843|
European Ancestry|
67,286 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Hair colour (natural, before greying) red—AUROC: 0.96093 [0.95755, 0.96431]R²: 0.60335
Incremental AUROC (full-covars): 0.3903
PGS R2 (no covariates): 0.60185
PGS AUROC (no covariates): 0.96068 [0.95728, 0.96408]		age, sex, UKB array type, Genotype PCsFull Model & PGS R2 is estimated using Nagelkerke's method
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Evaluated Samples

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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
PSS003840——
[
  • 5 cases
  • , 6,390 controls
]
—African unspecified—UKB—
PSS003841——
[
  • 1,124 cases
  • , 23,741 controls
]
—Europeannon-white British ancestryUKB—
PSS003843——
[
  • 3,058 cases
  • , 64,228 controls
]
—Europeanwhite British ancestryUKBTesting cohort (heldout set)
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