Trait: skin carcinoma

Trait Information
Identifier MONDO_0002656
Description A carcinoma that arises from epithelial cells of the zone of skin
Trait category
Other trait
Synonyms 10 synonyms
  • carcinoma of skin
  • carcinoma of the skin
  • carcinoma of zone of skin
  • non-melanoma cancer of skin
  • non-melanoma cancer of the skin
  • non-melanoma skin cancer
  • nonmelanoma skin cancer
  • skin cancer, non-melanoma
  • skin carcinoma
  • zone of skin carcinoma
Child trait(s) 3 child traits

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
Note: This table shows all PGS for "skin carcinoma" and any child terms of this trait in the EFO hierarchy by default.
Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution
GWAS
Dev
Eval
 Scoring File (FTP Link)
PGS000398
(PRSWEB_PHECODE172_20001-1003_PRS-CS_MGI_20200608)
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Skin cancer skin carcinoma 1,103,220
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000398/ScoringFiles/PGS000398.txt.gz
PGS000399
(PRSWEB_PHECODE172_20001-1003_PT_MGI_20200608)
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Skin cancer skin carcinoma 6
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000399/ScoringFiles/PGS000399.txt.gz
PGS000400
(PRSWEB_PHECODE172_C3-SKIN_P_5e-08_MGI_20200608)
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Skin cancer skin carcinoma 95
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000400/ScoringFiles/PGS000400.txt.gz
PGS000401
(PRSWEB_PHECODE172_C3-SKIN_PRS-CS_MGI_20200608)
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Skin cancer skin carcinoma 1,111,490
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000401/ScoringFiles/PGS000401.txt.gz
PGS000402
(PRSWEB_PHECODE172_C3-SKIN_PT_MGI_20200608)
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Skin cancer skin carcinoma 389
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000402/ScoringFiles/PGS000402.txt.gz
PGS000403
(PRSWEB_PHECODE172_C3-SKIN_LASSOSUM_MGI_20200608)
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Skin cancer skin carcinoma 16,316
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000403/ScoringFiles/PGS000403.txt.gz
PGS000404
(PRSWEB_PHECODE172_UKBB-SAIGE-HRC-X172_P_5e-08_MGI_20200608)
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Skin cancer skin carcinoma 80
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000404/ScoringFiles/PGS000404.txt.gz
PGS000405
(PRSWEB_PHECODE172_UKBB-SAIGE-HRC-X172_PRS-CS_MGI_20200608)
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Skin cancer skin carcinoma 1,119,238
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000405/ScoringFiles/PGS000405.txt.gz
PGS000406
(PRSWEB_PHECODE172_UKBB-SAIGE-HRC-X172_PT_MGI_20200608)
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Skin cancer skin carcinoma 292
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000406/ScoringFiles/PGS000406.txt.gz
PGS000407
(PRSWEB_PHECODE172_UKBB-SAIGE-HRC-X172_LASSOSUM_MGI_20200608)
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Skin cancer skin carcinoma 3,166
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000407/ScoringFiles/PGS000407.txt.gz
PGS000469
(PRSWEB_PHECODE172.3_UKBB-SAIGE-HRC-X172.3_PRS-CS_MGI_20200608)
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Carcinoma in situ of skin skin carcinoma in situ 1,119,238
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000469/ScoringFiles/PGS000469.txt.gz
PGS000470
(PRSWEB_PHECODE172.3_UKBB-SAIGE-HRC-X172.3_PT_MGI_20200608)
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Carcinoma in situ of skin skin carcinoma in situ 5
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000470/ScoringFiles/PGS000470.txt.gz
PGS000471
(PRSWEB_PHECODE172.3_UKBB-SAIGE-HRC-X172.3_LASSOSUM_MGI_20200608)
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Carcinoma in situ of skin skin carcinoma in situ 7
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000471/ScoringFiles/PGS000471.txt.gz
PGS001040
(GBE_cancer1060)
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Non melanoma skin cancer non-melanoma skin carcinoma 1,610
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001040/ScoringFiles/PGS001040.txt.gz
PGS001041
(GBE_cancer1003)
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Skin cancer skin carcinoma 1,298
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001041/ScoringFiles/PGS001041.txt.gz
PGS001803
(portability-PLR_172)
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Skin cancer skin carcinoma 4,371
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001803/ScoringFiles/PGS001803.txt.gz
PGS002014
(portability-ldpred2_172)
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Skin cancer skin carcinoma 534,399
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002014/ScoringFiles/PGS002014.txt.gz
PGS004592
(PRS_KC)
 PGP000571 |
Liyanage UE et al. J Eur Acad Dermatol Venereol (2022)
 Keratinocyte cancer keratinocyte carcinoma 78
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS004592/ScoringFiles/PGS004592.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
PPM001083 PGS000398
(PRSWEB_PHECODE172_20001-1003_PRS-CS_MGI_20200608)
 PSS000548|
European Ancestry|
17,607 individuals
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Reported Trait: Skin cancer OR: 1.042 [1.003, 1.082]
β: 0.0407 (0.0195)		 AUROC: 0.51 [0.499, 0.521] Nagelkerke's Pseudo-R²: 0.00028
Brier score: 0.148
Odds Ratio (OR, top 1% vs. Rest): 1.7 [1.22, 2.38]		 age, sex, batch PCs 1-4 Cancer PRSweb PheWAS Results: PRSWEB_PHECODE172_20001-1003_PRS-CS_MGI_20200608
PPM001084 PGS000399
(PRSWEB_PHECODE172_20001-1003_PT_MGI_20200608)
 PSS000548|
European Ancestry|
17,607 individuals
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Reported Trait: Skin cancer OR: 1.158 [1.116, 1.202]
β: 0.147 (0.0189)		 AUROC: 0.513 [0.503, 0.523] Nagelkerke's Pseudo-R²: 0.00545
Brier score: 0.148
Odds Ratio (OR, top 1% vs. Rest): 1.56 [1.12, 2.16]		 age, sex, batch PCs 1-4 Cancer PRSweb PheWAS Results: PRSWEB_PHECODE172_20001-1003_PT_MGI_20200608
PPM001085 PGS000400
(PRSWEB_PHECODE172_C3-SKIN_P_5e-08_MGI_20200608)
 PSS000548|
European Ancestry|
17,607 individuals
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Reported Trait: Skin cancer OR: 1.342 [1.291, 1.395]
β: 0.294 (0.0197)		 AUROC: 0.581 [0.57, 0.592] Nagelkerke's Pseudo-R²: 0.0201
Brier score: 0.146
Odds Ratio (OR, top 1% vs. Rest): 2.2 [1.63, 2.98]		 age, sex, batch PCs 1-4 Cancer PRSweb PheWAS Results: PRSWEB_PHECODE172_C3-SKIN_P_5e-08_MGI_20200608
PPM001086 PGS000401
(PRSWEB_PHECODE172_C3-SKIN_PRS-CS_MGI_20200608)
 PSS000548|
European Ancestry|
17,607 individuals
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Reported Trait: Skin cancer OR: 1.342 [1.291, 1.396]
β: 0.294 (0.0199)		 AUROC: 0.581 [0.57, 0.591] Nagelkerke's Pseudo-R²: 0.0202
Brier score: 0.146
Odds Ratio (OR, top 1% vs. Rest): 2.25 [1.67, 3.03]		 age, sex, batch PCs 1-4 Cancer PRSweb PheWAS Results: PRSWEB_PHECODE172_C3-SKIN_PRS-CS_MGI_20200608
PPM001087 PGS000402
(PRSWEB_PHECODE172_C3-SKIN_PT_MGI_20200608)
 PSS000548|
European Ancestry|
17,607 individuals
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Reported Trait: Skin cancer OR: 1.366 [1.314, 1.421]
β: 0.312 (0.0198)		 AUROC: 0.586 [0.576, 0.597] Nagelkerke's Pseudo-R²: 0.0224
Brier score: 0.146
Odds Ratio (OR, top 1% vs. Rest): 2.23 [1.64, 3.03]		 age, sex, batch PCs 1-4 Cancer PRSweb PheWAS Results: PRSWEB_PHECODE172_C3-SKIN_PT_MGI_20200608
PPM001088 PGS000403
(PRSWEB_PHECODE172_C3-SKIN_LASSOSUM_MGI_20200608)
 PSS000548|
European Ancestry|
17,607 individuals
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Reported Trait: Skin cancer OR: 1.359 [1.307, 1.413]
β: 0.307 (0.0199)		 AUROC: 0.584 [0.573, 0.594] Nagelkerke's Pseudo-R²: 0.0219
Brier score: 0.146
Odds Ratio (OR, top 1% vs. Rest): 1.65 [1.2, 2.27]		 age, sex, batch PCs 1-4 Cancer PRSweb PheWAS Results: PRSWEB_PHECODE172_C3-SKIN_LASSOSUM_MGI_20200608
PPM001089 PGS000404
(PRSWEB_PHECODE172_UKBB-SAIGE-HRC-X172_P_5e-08_MGI_20200608)
 PSS000548|
European Ancestry|
17,607 individuals
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Reported Trait: Skin cancer OR: 1.369 [1.317, 1.422]
β: 0.314 (0.0196)		 AUROC: 0.584 [0.574, 0.594] Nagelkerke's Pseudo-R²: 0.0226
Brier score: 0.146
Odds Ratio (OR, top 1% vs. Rest): 2.3 [1.72, 3.09]		 age, sex, batch PCs 1-4 Cancer PRSweb PheWAS Results: PRSWEB_PHECODE172_UKBB-SAIGE-HRC-X172_P_5e-08_MGI_20200608
PPM001090 PGS000405
(PRSWEB_PHECODE172_UKBB-SAIGE-HRC-X172_PRS-CS_MGI_20200608)
 PSS000548|
European Ancestry|
17,607 individuals
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Reported Trait: Skin cancer OR: 1.338 [1.287, 1.391]
β: 0.291 (0.0199)		 AUROC: 0.58 [0.57, 0.591] Nagelkerke's Pseudo-R²: 0.0192
Brier score: 0.146
Odds Ratio (OR, top 1% vs. Rest): 2.42 [1.81, 3.24]		 age, sex, batch PCs 1-4 Cancer PRSweb PheWAS Results: PRSWEB_PHECODE172_UKBB-SAIGE-HRC-X172_PRS-CS_MGI_20200608
PPM001091 PGS000406
(PRSWEB_PHECODE172_UKBB-SAIGE-HRC-X172_PT_MGI_20200608)
 PSS000548|
European Ancestry|
17,607 individuals
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Reported Trait: Skin cancer OR: 1.392 [1.339, 1.447]
β: 0.331 (0.0199)		 AUROC: 0.591 [0.581, 0.602] Nagelkerke's Pseudo-R²: 0.0249
Brier score: 0.146
Odds Ratio (OR, top 1% vs. Rest): 2.51 [1.89, 3.34]		 age, sex, batch PCs 1-4 Cancer PRSweb PheWAS Results: PRSWEB_PHECODE172_UKBB-SAIGE-HRC-X172_PT_MGI_20200608
PPM001092 PGS000407
(PRSWEB_PHECODE172_UKBB-SAIGE-HRC-X172_LASSOSUM_MGI_20200608)
 PSS000548|
European Ancestry|
17,607 individuals
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Reported Trait: Skin cancer OR: 1.38 [1.328, 1.434]
β: 0.322 (0.0197)		 AUROC: 0.586 [0.575, 0.597] Nagelkerke's Pseudo-R²: 0.0245
Brier score: 0.146
Odds Ratio (OR, top 1% vs. Rest): 2.26 [1.69, 3.03]		 age, sex, batch PCs 1-4 Cancer PRSweb PheWAS Results: PRSWEB_PHECODE172_UKBB-SAIGE-HRC-X172_LASSOSUM_MGI_20200608
PPM001154 PGS000469
(PRSWEB_PHECODE172.3_UKBB-SAIGE-HRC-X172.3_PRS-CS_MGI_20200608)
 PSS000547|
European Ancestry|
5,500 individuals
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Reported Trait: Carcinoma in situ of skin OR: 1.09 [1.001, 1.188]
β: 0.0865 (0.0437)		 AUROC: 0.524 [0.499, 0.549] Nagelkerke's Pseudo-R²: 0.00141
Brier score: 0.0939
Odds Ratio (OR, top 1% vs. Rest): 1.48 [0.703, 3.1]		 age, sex, batch PCs 1-4 Cancer PRSweb PheWAS Results: PRSWEB_PHECODE172.3_UKBB-SAIGE-HRC-X172.3_PRS-CS_MGI_20200608
PPM001155 PGS000470
(PRSWEB_PHECODE172.3_UKBB-SAIGE-HRC-X172.3_PT_MGI_20200608)
 PSS000547|
European Ancestry|
5,500 individuals
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Reported Trait: Carcinoma in situ of skin OR: 1.308 [1.208, 1.417]
β: 0.269 (0.0407)		 AUROC: 0.557 [0.531, 0.582] Nagelkerke's Pseudo-R²: 0.0154
Brier score: 0.093
Odds Ratio (OR, top 1% vs. Rest): 2.45 [1.34, 4.45]		 age, sex, batch PCs 1-4 Cancer PRSweb PheWAS Results: PRSWEB_PHECODE172.3_UKBB-SAIGE-HRC-X172.3_PT_MGI_20200608
PPM001156 PGS000471
(PRSWEB_PHECODE172.3_UKBB-SAIGE-HRC-X172.3_LASSOSUM_MGI_20200608)
 PSS000547|
European Ancestry|
5,500 individuals
 PGP000118 |
Fritsche LG et al. Am J Hum Genet (2020)
 Reported Trait: Carcinoma in situ of skin OR: 1.401 [1.297, 1.513]
β: 0.337 (0.0393)		 AUROC: 0.569 [0.541, 0.595] Nagelkerke's Pseudo-R²: 0.0255
Brier score: 0.0923
Odds Ratio (OR, top 1% vs. Rest): 3.77 [2.24, 6.34]		 age, sex, batch PCs 1-4 Cancer PRSweb PheWAS Results: PRSWEB_PHECODE172.3_UKBB-SAIGE-HRC-X172.3_LASSOSUM_MGI_20200608
PPM007958 PGS001040
(GBE_cancer1060)
 PSS007651|
African Ancestry|
6,497 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Non-melanoma skin cancer — AUROC: 0.80478 [0.72556, 0.884] R²: 0.07029
Incremental AUROC (full-covars): -0.00066
PGS R2 (no covariates): 0.00133
PGS AUROC (no covariates): 0.54127 [0.39017, 0.69237]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007959 PGS001040
(GBE_cancer1060)
 PSS007652|
East Asian Ancestry|
1,704 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Non-melanoma skin cancer — AUROC: 0.86455 [0.80574, 0.92335] R²: 0.12918
Incremental AUROC (full-covars): -0.00442
PGS R2 (no covariates): 0.00152
PGS AUROC (no covariates): 0.4523 [0.1694, 0.73519]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007960 PGS001040
(GBE_cancer1060)
 PSS007653|
European Ancestry|
24,905 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Non-melanoma skin cancer — AUROC: 0.73342 [0.72065, 0.74619] R²: 0.10751
Incremental AUROC (full-covars): 0.0378
PGS R2 (no covariates): 0.05185
PGS AUROC (no covariates): 0.66327 [0.64889, 0.67765]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007961 PGS001040
(GBE_cancer1060)
 PSS007654|
South Asian Ancestry|
7,831 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Non-melanoma skin cancer — AUROC: 0.76366 [0.66832, 0.85901] R²: 0.06447
Incremental AUROC (full-covars): -0.00934
PGS R2 (no covariates): 0.00078
PGS AUROC (no covariates): 0.47181 [0.35611, 0.58752]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007962 PGS001040
(GBE_cancer1060)
 PSS007655|
European Ancestry|
67,425 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Non-melanoma skin cancer — AUROC: 0.70656 [0.69863, 0.7145] R²: 0.08615
Incremental AUROC (full-covars): 0.04717
PGS R2 (no covariates): 0.03949
PGS AUROC (no covariates): 0.64209 [0.6334, 0.65078]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM018463 PGS001040
(GBE_cancer1060)
 PSS010980|
European Ancestry|
4,797 individuals
 PGP000467 |
Farré X et al. Genes (Basel) (2023)
|Ext.		 Reported Trait: Ease sunburn β: 0.08836 — R²: 0.01475 — —
PPM018465 PGS001040
(GBE_cancer1060)
 PSS010980|
European Ancestry|
4,797 individuals
 PGP000467 |
Farré X et al. Genes (Basel) (2023)
|Ext.		 Reported Trait: Fitzpatrick scale β: -0.0689 — R²: 0.03786 — —
PPM018459 PGS001040
(GBE_cancer1060)
 PSS010980|
European Ancestry|
4,797 individuals
 PGP000467 |
Farré X et al. Genes (Basel) (2023)
|Ext.		 Reported Trait: Eye colour β: -0.11302 — R²: 0.0106 — —
PPM018460 PGS001040
(GBE_cancer1060)
 PSS010980|
European Ancestry|
4,797 individuals
 PGP000467 |
Farré X et al. Genes (Basel) (2023)
|Ext.		 Reported Trait: Skin colour β: -0.05462 — R²: 0.01757 — —
PPM018461 PGS001040
(GBE_cancer1060)
 PSS010980|
European Ancestry|
4,797 individuals
 PGP000467 |
Farré X et al. Genes (Basel) (2023)
|Ext.		 Reported Trait: Freckles β: 0.09955 — R²: 0.02643 — —
PPM018462 PGS001040
(GBE_cancer1060)
 PSS010980|
European Ancestry|
4,797 individuals
 PGP000467 |
Farré X et al. Genes (Basel) (2023)
|Ext.		 Reported Trait: Ease suntan β: -0.06804 — R²: 0.01892 — —
PPM018464 PGS001040
(GBE_cancer1060)
 PSS010980|
European Ancestry|
4,797 individuals
 PGP000467 |
Farré X et al. Genes (Basel) (2023)
|Ext.		 Reported Trait: Phototype score β: -1.51455 — R²: 0.04441 — —
PPM018466 PGS001040
(GBE_cancer1060)
 PSS010980|
European Ancestry|
4,797 individuals
 PGP000467 |
Farré X et al. Genes (Basel) (2023)
|Ext.		 Reported Trait: Blond hair β: 1.14835 — pseudo R²: 0.01006 — —
PPM007963 PGS001041
(GBE_cancer1003)
 PSS007621|
African Ancestry|
6,497 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Skin cancer — AUROC: 0.78777 [0.7126, 0.86293] R²: 0.06151
Incremental AUROC (full-covars): 0.00386
PGS R2 (no covariates): 0.00103
PGS AUROC (no covariates): 0.5229 [0.37426, 0.67153]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007964 PGS001041
(GBE_cancer1003)
 PSS007622|
East Asian Ancestry|
1,704 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Skin cancer — AUROC: 0.83061 [0.75233, 0.9089] R²: 0.10839
Incremental AUROC (full-covars): 0.0017
PGS R2 (no covariates): 0.00376
PGS AUROC (no covariates): 0.56985 [0.36492, 0.77477]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007965 PGS001041
(GBE_cancer1003)
 PSS007623|
European Ancestry|
24,905 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Skin cancer — AUROC: 0.71667 [0.70431, 0.72902] R²: 0.09613
Incremental AUROC (full-covars): 0.03439
PGS R2 (no covariates): 0.04566
PGS AUROC (no covariates): 0.65086 [0.63722, 0.6645]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007966 PGS001041
(GBE_cancer1003)
 PSS007624|
South Asian Ancestry|
7,831 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Skin cancer — AUROC: 0.76232 [0.67332, 0.85131] R²: 0.07091
Incremental AUROC (full-covars): -0.01012
PGS R2 (no covariates): 6e-05
PGS AUROC (no covariates): 0.49291 [0.37897, 0.60686]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007967 PGS001041
(GBE_cancer1003)
 PSS007625|
European Ancestry|
67,425 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Skin cancer — AUROC: 0.6935 [0.68584, 0.70116] R²: 0.07834
Incremental AUROC (full-covars): 0.04393
PGS R2 (no covariates): 0.03573
PGS AUROC (no covariates): 0.63289 [0.62459, 0.64118]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM009332 PGS001803
(portability-PLR_172)
 PSS008601|
European Ancestry|
6,656 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Skin cancer — — Partial Correlation (partial-r): 0.0762 [0.0522, 0.1001] sex, age, birth date, deprivation index, 16 PCs —
PPM009333 PGS001803
(portability-PLR_172)
 PSS008379|
Greater Middle Eastern Ancestry|
1,200 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Skin cancer — — Partial Correlation (partial-r): 0.0694 [0.0123, 0.1259] sex, age, birth date, deprivation index, 16 PCs —
PPM009334 PGS001803
(portability-PLR_172)
 PSS008155|
South Asian Ancestry|
6,328 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Skin cancer — — Partial Correlation (partial-r): -0.0135 [-0.0382, 0.0112] sex, age, birth date, deprivation index, 16 PCs —
PPM009330 PGS001803
(portability-PLR_172)
 PSS009273|
European Ancestry|
19,990 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Skin cancer — — Partial Correlation (partial-r): 0.1136 [0.0999, 0.1272] sex, age, birth date, deprivation index, 16 PCs —
PPM009331 PGS001803
(portability-PLR_172)
 PSS009047|
European Ancestry|
4,134 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Skin cancer — — Partial Correlation (partial-r): 0.0962 [0.0659, 0.1264] sex, age, birth date, deprivation index, 16 PCs —
PPM009335 PGS001803
(portability-PLR_172)
 PSS007943|
East Asian Ancestry|
1,810 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Skin cancer — — Partial Correlation (partial-r): 0.0054 [-0.041, 0.0517] sex, age, birth date, deprivation index, 16 PCs —
PPM009336 PGS001803
(portability-PLR_172)
 PSS007725|
African Ancestry|
2,483 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Skin cancer — — Partial Correlation (partial-r): -0.0065 [-0.046, 0.033] sex, age, birth date, deprivation index, 16 PCs —
PPM009337 PGS001803
(portability-PLR_172)
 PSS008827|
African Ancestry|
3,924 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Skin cancer — — Partial Correlation (partial-r): 0.0165 [-0.0149, 0.0479] sex, age, birth date, deprivation index, 16 PCs —
PPM010986 PGS002014
(portability-ldpred2_172)
 PSS009273|
European Ancestry|
19,990 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Skin cancer — — Partial Correlation (partial-r): 0.1242 [0.1105, 0.1378] sex, age, birth date, deprivation index, 16 PCs —
PPM010990 PGS002014
(portability-ldpred2_172)
 PSS008155|
South Asian Ancestry|
6,328 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Skin cancer — — Partial Correlation (partial-r): -0.0147 [-0.0394, 0.01] sex, age, birth date, deprivation index, 16 PCs —
PPM010991 PGS002014
(portability-ldpred2_172)
 PSS007943|
East Asian Ancestry|
1,810 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Skin cancer — — Partial Correlation (partial-r): -0.0041 [-0.0504, 0.0423] sex, age, birth date, deprivation index, 16 PCs —
PPM010992 PGS002014
(portability-ldpred2_172)
 PSS007725|
African Ancestry|
2,483 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Skin cancer — — Partial Correlation (partial-r): -0.0062 [-0.0457, 0.0333] sex, age, birth date, deprivation index, 16 PCs —
PPM010993 PGS002014
(portability-ldpred2_172)
 PSS008827|
African Ancestry|
3,924 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Skin cancer — — Partial Correlation (partial-r): 0.0146 [-0.0168, 0.0459] sex, age, birth date, deprivation index, 16 PCs —
PPM010987 PGS002014
(portability-ldpred2_172)
 PSS009047|
European Ancestry|
4,134 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Skin cancer — — Partial Correlation (partial-r): 0.0876 [0.0572, 0.1178] sex, age, birth date, deprivation index, 16 PCs —
PPM010988 PGS002014
(portability-ldpred2_172)
 PSS008601|
European Ancestry|
6,656 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Skin cancer — — Partial Correlation (partial-r): 0.076 [0.0521, 0.0999] sex, age, birth date, deprivation index, 16 PCs —
PPM010989 PGS002014
(portability-ldpred2_172)
 PSS008379|
Greater Middle Eastern Ancestry|
1,200 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Skin cancer — — Partial Correlation (partial-r): 0.0717 [0.0147, 0.1282] sex, age, birth date, deprivation index, 16 PCs —
PPM020722 PGS004592
(PRS_KC)
 PSS011383|
European Ancestry|
998 individuals
 PGP000571 |
Liyanage UE et al. J Eur Acad Dermatol Venereol (2022)
 Reported Trait: Keratinocyte cancer OR: 1.51 [1.3, 1.76] AUROC: 0.74 R²: 0.231 Age, sex, self-reported skin tanning ability, clinical grade of neck elastosis, genotyping batch, first 2 PCs —
PPM020723 PGS004592
(PRS_KC)
 PSS011383|
European Ancestry|
998 individuals
 PGP000571 |
Liyanage UE et al. J Eur Acad Dermatol Venereol (2022)
 Reported Trait: Keratinocyte cancer — — Odds ratio (OR, top PRS quintile vs bottom PRS quintile): 3.45 [2.18, 5.5] Age, sex, self-reported skin tanning ability, clinical grade of neck elastosis, genotyping batch, first 2 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
PSS007621 — —
[
  • 12 cases
  • , 6,485 controls
]
 — African unspecified — UKB —
PSS007622 — —
[
  • 9 cases
  • , 1,695 controls
]
 — East Asian — UKB —
PSS007623 — —
[
  • 1,649 cases
  • , 23,256 controls
]
 — European non-white British ancestry UKB —
PSS007624 — —
[
  • 20 cases
  • , 7,811 controls
]
 — South Asian — UKB —
PSS007625 — —
[
  • 4,637 cases
  • , 62,788 controls
]
 — European white British ancestry UKB Testing cohort (heldout set)
PSS011383 — —
[
  • 432 cases
  • , 566 controls
]
,
44.0 % Male samples
 — European — NSCS —
PSS009047 — — 4,134 individuals — European Poland (NE Europe) UKB —
PSS008155 — — 6,328 individuals — South Asian India (South Asia) UKB —
PSS007651 — —
[
  • 11 cases
  • , 6,486 controls
]
 — African unspecified — UKB —
PSS007652 — —
[
  • 6 cases
  • , 1,698 controls
]
 — East Asian — UKB —
PSS007653 — —
[
  • 1,442 cases
  • , 23,463 controls
]
 — European non-white British ancestry UKB —
PSS007654 — —
[
  • 18 cases
  • , 7,813 controls
]
 — South Asian — UKB —
PSS007655 — —
[
  • 4,141 cases
  • , 63,284 controls
]
 — European white British ancestry UKB Testing cohort (heldout set)
PSS008827 — — 3,924 individuals — African unspecified Nigeria (West Africa) UKB —
PSS007943 — — 1,810 individuals — East Asian China (East Asia) UKB —
PSS008601 — — 6,656 individuals — European Italy (South Europe) UKB —
PSS010980 — — 4,797 individuals — European — NR GCAT
PSS007725 — — 2,483 individuals — African American or Afro-Caribbean Carribean UKB —
PSS009273 — — 19,990 individuals — European UK (+ Ireland) UKB —
PSS008379 — — 1,200 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS000547 PheCode:172.3; ICD9CM:232.0, 232.1, 232.2, 232.3, 232.4, 232.5, 232.6, 232.7, 232.8, 232.9; ICD10CM:D04, D04.0, D04.1, D04.10, D04.11, D04.12, D04.2, D04.20, D04.21, D04.22, D04.3, D04.30, D04.39, D04.4, D04.5, D04.6, D04.60, D04.61, D04.62, D04.7, D04.70, D04.71, D04.72, D04.8, D04.9 —
[
  • 585 cases
  • , 4,915 controls
]
 — European — MGI —
PSS000548 PheCode:172; ICD9CM:172.0, 172.1, 172.2, 172.3, 172.4, 172.5, 172.6, 172.7, 172.8, 172.9, 173.00, 173.01, 173.02, 173.09, 173.10, 173.11, 173.12, 173.19, 173.20, 173.21, 173.22, 173.29, 173.30, 173.31, 173.32, 173.39, 173.40, 173.41, 173.42, 173.49, 173.50, 173.51, 173.52, 173.59, 173.60, 173.61, 173.62, 173.69, 173.70, 173.71, 173.72, 173.79, 173.80, 173.81, 173.82, 173.89, 173.90, 173.91, 173.92, 173.99, 209.31, 209.32, 209.33, 209.34, 209.35, 209.36, 232.0, 232.1, 232.2, 232.3, 232.4, 232.5, 232.6, 232.7, 232.8, 232.9, V10.82, V10.83; ICD10CM:C43, C43.0, C43.1, C43.10, C43.11, C43.12, C43.2, C43.20, C43.21, C43.22, C43.3, C43.30, C43.31, C43.39, C43.4, C43.5, C43.51, C43.52, C43.59, C43.6, C43.60, C43.61, C43.62, C43.7, C43.70, C43.71, C43.72, C43.8, C43.9, C44.0, C44.00, C44.01, C44.02, C44.09, C44.1, C44.10, C44.101, C44.102, C44.109, C44.11, C44.111, C44.112, C44.119, C44.12, C44.121, C44.122, C44.129, C44.19, C44.191, C44.192, C44.199, C44.2, C44.20, C44.201, C44.202, C44.209, C44.21, C44.211, C44.212, C44.219, C44.22, C44.221, C44.222, C44.229, C44.29, C44.291, C44.292, C44.299, C44.30, C44.300, C44.301, C44.309, C44.31, C44.310, C44.311, C44.319, C44.320, C44.321, C44.329, C44.39, C44.390, C44.391, C44.399, C44.4, C44.40, C44.41, C44.42, C44.49, C44.500, C44.501, C44.509, C44.51, C44.510, C44.511, C44.519, C44.52, C44.520, C44.521, C44.529, C44.59, C44.590, C44.591, C44.599, C44.6, C44.60, C44.601, C44.602, C44.609, C44.61, C44.611, C44.612, C44.619, C44.62, C44.621, C44.622, C44.629, C44.69, C44.691, C44.692, C44.699, C44.7, C44.70, C44.701, C44.702, C44.709, C44.71, C44.711, C44.712, C44.719, C44.72, C44.721, C44.722, C44.729, C44.79, C44.791, C44.792, C44.799, C44.8, C44.80, C44.81, C44.82, C44.89, C44.9, C44.90, C44.91, C44.92, C44.99, C4A, C4A.0, C4A.1, C4A.10, C4A.11, C4A.12, C4A.2, C4A.20, C4A.21, C4A.22, C4A.3, C4A.30, C4A.31, C4A.39, C4A.4, C4A.5, C4A.51, C4A.52, C4A.59, C4A.6, C4A.60, C4A.61, C4A.62, C4A.7, C4A.70, C4A.71, C4A.72, C4A.8, C4A.9, D03, D03.0, D03.1, D03.10, D03.11, D03.12, D03.2, D03.20, D03.21, D03.22, D03.3, D03.30, D03.39, D03.4, D03.5, D03.51, D03.52, D03.59, D03.6, D03.60, D03.61, D03.62, D03.7, D03.70, D03.71, D03.72, D03.8, D03.9, D04, D04.0, D04.1, D04.10, D04.11, D04.12, D04.2, D04.20, D04.21, D04.22, D04.3, D04.30, D04.39, D04.4, D04.5, D04.6, D04.60, D04.61, D04.62, D04.7, D04.70, D04.71, D04.72, D04.8, D04.9 —
[
  • 3,557 cases
  • , 14,050 controls
]
 — European — MGI —