PGS Publication: PGP000429

Publication Information (EuropePMC)
Title A multi-phenotype analysis reveals 19 susceptibility loci for basal cell carcinoma and 15 for squamous cell carcinoma.
PubMed ID 36496446(Europe PMC)
doi 10.1038/s41467-022-35345-8
Publication Date Dec. 10, 2022
Journal Nat Commun
Author(s) Seviiri M, Law MH, Ong JS, Gharahkhani P, Fontanillas P, 23andMe Research Team, Olsen CM, Whiteman DC, MacGregor S.
Released in PGS Catalog: Feb. 8, 2023

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:
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Hispanic or Latin American
Additional Diverse Ancestries
Not Reported

PGS Developed By This Publication

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)
PGS003416
(MTAGPRS)
 PGP000429 |
Seviiri M et al. Nat Commun (2022)
 Basal cell carcinoma (MTAG) basal cell carcinoma 462
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003416/ScoringFiles/PGS003416.txt.gz
PGS003417
(UKBPRS)
 PGP000429 |
Seviiri M et al. Nat Commun (2022)
 Basal cell carcinoma basal cell carcinoma 273
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003417/ScoringFiles/PGS003417.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
PPM017069 PGS003416
(MTAGPRS)
 PSS010113|
European Ancestry|
18,933 individuals
 PGP000429 |
Seviiri M et al. Nat Commun (2022)
 Reported Trait: Keratinocyte cancers OR: 1.66 [1.55, 1.79] — — age, sex, 10 ancesty PCs —
PPM017070 PGS003417
(UKBPRS)
 PSS010113|
European Ancestry|
18,933 individuals
 PGP000429 |
Seviiri M et al. Nat Commun (2022)
 Reported Trait: Keratinocyte cancers OR: 1.56 [1.45, 1.67] — — age, sex, 10 ancesty 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
PSS010113 — — 18,933 individuals — European — CLSA —