Trait: suntan

Experimental Factor Ontology (EFO) Information
Identifier EFO_0004279
Description An induced skin pigment ( MELANIN) darkening after exposure to SUNLIGHT or ULTRAVIOLET RAYS. The degree of tanning depends on the intensity and duration of UV exposure, and genetic factors.
Trait category
Other trait
Mapped terms 2 mapped terms
  • MeSH:D055107
  • SNOMEDCT:238516007

Associated Polygenic Score(s)

Filter PGS by Participant Ancestry
Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
List of ancestries includes:
Display options:
Ancestry legend
Multi-ancestry (including European)
Multi-ancestry (excluding European)
African
East Asian
South Asian
Additional Asian Ancestries
European
Greater Middle Eastern
Hispanic or Latin American
Additional Diverse Ancestries
Not Reported
Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution Scoring File (FTP Link)
PGS001244
(GBE_BIN_FC30001727)
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Ease of skin tanning (get mildly or occasionally tanned) suntan 958
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001244/ScoringFiles/PGS001244.txt.gz
PGS001245
(GBE_BIN_FC20001727)
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Ease of skin tanning (get moderately tanned) suntan 2,693
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001245/ScoringFiles/PGS001245.txt.gz
PGS001246
(GBE_BIN_FC10001727)
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Ease of skin tanning (get very tanned) suntan 4,130
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001246/ScoringFiles/PGS001246.txt.gz
PGS001247
(GBE_BIN_FC40001727)
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Ease of skin tanning (never tan, only burn) suntan 3,159
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001247/ScoringFiles/PGS001247.txt.gz

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)
Evaluated Score 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
PPM008729 PGS001244
(GBE_BIN_FC30001727)
PSS003879|
African Ancestry|
4,524 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ease of skin tanning (Get mildly or occasionally tanned) AUROC: 0.52345 [0.50398, 0.54292] : 0.00289
Incremental AUROC (full-covars): -0.04291
PGS R2 (no covariates): 0.00485
PGS AUROC (no covariates): 0.46513 [0.44563, 0.48463]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008730 PGS001244
(GBE_BIN_FC30001727)
PSS003880|
East Asian Ancestry|
1,541 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ease of skin tanning (Get mildly or occasionally tanned) AUROC: 0.54571 [0.50672, 0.5847] : 0.01015
Incremental AUROC (full-covars): -0.01074
PGS R2 (no covariates): 0.00029
PGS AUROC (no covariates): 0.50235 [0.46279, 0.54191]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008731 PGS001244
(GBE_BIN_FC30001727)
PSS003881|
European Ancestry|
24,421 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ease of skin tanning (Get mildly or occasionally tanned) AUROC: 0.64487 [0.63683, 0.65291] : 0.06277
Incremental AUROC (full-covars): 0.03781
PGS R2 (no covariates): 0.05363
PGS AUROC (no covariates): 0.63901 [0.631, 0.64703]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008732 PGS001244
(GBE_BIN_FC30001727)
PSS003882|
South Asian Ancestry|
6,616 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ease of skin tanning (Get mildly or occasionally tanned) AUROC: 0.5248 [0.50879, 0.54081] : 0.00212
Incremental AUROC (full-covars): -0.01511
PGS R2 (no covariates): 0.00013
PGS AUROC (no covariates): 0.50088 [0.48459, 0.51717]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008733 PGS001244
(GBE_BIN_FC30001727)
PSS003883|
European Ancestry|
66,187 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ease of skin tanning (Get mildly or occasionally tanned) AUROC: 0.63688 [0.63202, 0.64174] : 0.05636
Incremental AUROC (full-covars): 0.0631
PGS R2 (no covariates): 0.04114
PGS AUROC (no covariates): 0.61836 [0.61342, 0.62331]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008734 PGS001245
(GBE_BIN_FC20001727)
PSS003820|
African Ancestry|
4,524 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ease of skin tanning (Get moderately tanned) AUROC: 0.56845 [0.54941, 0.58748] : 0.0181
Incremental AUROC (full-covars): -0.00634
PGS R2 (no covariates): 0.00058
PGS AUROC (no covariates): 0.4935 [0.47406, 0.51294]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008735 PGS001245
(GBE_BIN_FC20001727)
PSS003821|
East Asian Ancestry|
1,541 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ease of skin tanning (Get moderately tanned) AUROC: 0.56854 [0.53942, 0.59766] : 0.0235
Incremental AUROC (full-covars): -0.00697
PGS R2 (no covariates): 3e-05
PGS AUROC (no covariates): 0.50505 [0.47505, 0.53504]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008736 PGS001245
(GBE_BIN_FC20001727)
PSS003822|
European Ancestry|
24,421 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ease of skin tanning (Get moderately tanned) AUROC: 0.60803 [0.60093, 0.61513] : 0.0505
Incremental AUROC (full-covars): 0.02684
PGS R2 (no covariates): 0.04554
PGS AUROC (no covariates): 0.59926 [0.59214, 0.60639]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008737 PGS001245
(GBE_BIN_FC20001727)
PSS003823|
South Asian Ancestry|
6,616 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ease of skin tanning (Get moderately tanned) AUROC: 0.53215 [0.51774, 0.54657] : 0.00473
Incremental AUROC (full-covars): -0.01571
PGS R2 (no covariates): 0.00011
PGS AUROC (no covariates): 0.4952 [0.4807, 0.5097]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008738 PGS001245
(GBE_BIN_FC20001727)
PSS003824|
European Ancestry|
66,187 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ease of skin tanning (Get moderately tanned) AUROC: 0.59038 [0.58606, 0.5947] : 0.03719
Incremental AUROC (full-covars): 0.0541
PGS R2 (no covariates): 0.03521
PGS AUROC (no covariates): 0.58661 [0.58228, 0.59094]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008739 PGS001246
(GBE_BIN_FC10001727)
PSS003706|
African Ancestry|
4,524 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ease of skin tanning (Get very tanned) AUROC: 0.55472 [0.5369, 0.57253] : 0.00767
Incremental AUROC (full-covars): -0.09744
PGS R2 (no covariates): 0.02303
PGS AUROC (no covariates): 0.42303 [0.40544, 0.44063]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008740 PGS001246
(GBE_BIN_FC10001727)
PSS003707|
East Asian Ancestry|
1,541 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ease of skin tanning (Get very tanned) AUROC: 0.57445 [0.54548, 0.60341] : 0.0252
Incremental AUROC (full-covars): 0.0116
PGS R2 (no covariates): 0.00504
PGS AUROC (no covariates): 0.53511 [0.50559, 0.56464]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008741 PGS001246
(GBE_BIN_FC10001727)
PSS003708|
European Ancestry|
24,421 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ease of skin tanning (Get very tanned) AUROC: 0.74853 [0.74163, 0.75543] : 0.19694
Incremental AUROC (full-covars): 0.07826
PGS R2 (no covariates): 0.20123
PGS AUROC (no covariates): 0.75019 [0.74322, 0.75717]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008742 PGS001246
(GBE_BIN_FC10001727)
PSS003709|
South Asian Ancestry|
6,616 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ease of skin tanning (Get very tanned) AUROC: 0.53071 [0.51584, 0.54558] : 0.00488
Incremental AUROC (full-covars): -0.02206
PGS R2 (no covariates): 0.00175
PGS AUROC (no covariates): 0.51457 [0.4998, 0.52934]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008743 PGS001246
(GBE_BIN_FC10001727)
PSS003710|
European Ancestry|
66,187 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ease of skin tanning (Get very tanned) AUROC: 0.73548 [0.73096, 0.74] : 0.17513
Incremental AUROC (full-covars): 0.13981
PGS R2 (no covariates): 0.14977
PGS AUROC (no covariates): 0.71732 [0.71263, 0.72202]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008744 PGS001247
(GBE_BIN_FC40001727)
PSS003924|
African Ancestry|
4,524 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ease of skin tanning (Never tan, only burn) AUROC: 0.72336 [0.70495, 0.74178] : 0.1468
Incremental AUROC (full-covars): -0.02841
PGS R2 (no covariates): 0.03694
PGS AUROC (no covariates): 0.40146 [0.38146, 0.42147]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008745 PGS001247
(GBE_BIN_FC40001727)
PSS003925|
East Asian Ancestry|
1,541 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ease of skin tanning (Never tan, only burn) AUROC: 0.60911 [0.55312, 0.6651] : 0.06219
Incremental AUROC (full-covars): -0.04068
PGS R2 (no covariates): 0.00142
PGS AUROC (no covariates): 0.46835 [0.41763, 0.51907]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008746 PGS001247
(GBE_BIN_FC40001727)
PSS003926|
European Ancestry|
24,421 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ease of skin tanning (Never tan, only burn) AUROC: 0.7732 [0.76576, 0.78064] : 0.23458
Incremental AUROC (full-covars): 0.08314
PGS R2 (no covariates): 0.24179
PGS AUROC (no covariates): 0.77686 [0.76951, 0.78422]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008747 PGS001247
(GBE_BIN_FC40001727)
PSS003927|
South Asian Ancestry|
6,616 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ease of skin tanning (Never tan, only burn) AUROC: 0.54182 [0.51791, 0.56574] : 0.00258
Incremental AUROC (full-covars): -0.04265
PGS R2 (no covariates): 0.00055
PGS AUROC (no covariates): 0.48795 [0.46261, 0.51329]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008748 PGS001247
(GBE_BIN_FC40001727)
PSS003928|
European Ancestry|
66,187 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ease of skin tanning (Never tan, only burn) AUROC: 0.74303 [0.7382, 0.74787] : 0.18357
Incremental AUROC (full-covars): 0.17233
PGS R2 (no covariates): 0.18165
PGS AUROC (no covariates): 0.74085 [0.73597, 0.74572]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method

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
PSS003924
[
  • 798 cases
  • , 3,726 controls
]
African unspecified UKB
PSS003925
[
  • 128 cases
  • , 1,413 controls
]
East Asian UKB
PSS003926
[
  • 4,667 cases
  • , 19,754 controls
]
European non-white British ancestry UKB
PSS003927
[
  • 552 cases
  • , 6,064 controls
]
South Asian UKB
PSS003928
[
  • 11,988 cases
  • , 54,199 controls
]
European white British ancestry UKB Testing cohort (heldout set)
PSS003820
[
  • 1,138 cases
  • , 3,386 controls
]
African unspecified UKB
PSS003821
[
  • 580 cases
  • , 961 controls
]
East Asian UKB
PSS003822
[
  • 9,176 cases
  • , 15,245 controls
]
European non-white British ancestry UKB
PSS003823
[
  • 2,395 cases
  • , 4,221 controls
]
South Asian UKB
PSS003824
[
  • 27,274 cases
  • , 38,913 controls
]
European white British ancestry UKB Testing cohort (heldout set)
PSS003706
[
  • 1,589 cases
  • , 2,935 controls
]
African unspecified UKB
PSS003707
[
  • 605 cases
  • , 936 controls
]
East Asian UKB
PSS003708
[
  • 5,648 cases
  • , 18,773 controls
]
European non-white British ancestry UKB
PSS003709
[
  • 2,117 cases
  • , 4,499 controls
]
South Asian UKB
PSS003710
[
  • 13,602 cases
  • , 52,585 controls
]
European white British ancestry UKB Testing cohort (heldout set)
PSS003879
[
  • 1,037 cases
  • , 3,487 controls
]
African unspecified UKB
PSS003880
[
  • 251 cases
  • , 1,290 controls
]
East Asian UKB
PSS003881
[
  • 5,255 cases
  • , 19,166 controls
]
European non-white British ancestry UKB
PSS003882
[
  • 1,622 cases
  • , 4,994 controls
]
South Asian UKB
PSS003883
[
  • 14,769 cases
  • , 51,418 controls
]
European white British ancestry UKB Testing cohort (heldout set)