PGS Publication: PGP000547

Publication Information (EuropePMC)
Title A partitioned 88-loci psoriasis genetic risk score reveals HLA and non-HLA contributions to clinical phenotypes in a Newfoundland psoriasis cohort.
PubMed ID 37323656(Europe PMC)
doi 10.3389/fgene.2023.1141010
Publication Date May 31, 2023
Journal Front Genet
Author(s) Bui A, Kumar S, Liu J, Orcales F, Gulliver S, Tsoi LC, Gulliver W, Liao W.
Released in PGS Catalog: Jan. 11, 2024

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

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)
PGS004315
(GRS-ALL)
 PGP000547 |
Bui A et al. Front Genet (2023)
 Psoriasis psoriasis 88
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS004315/ScoringFiles/PGS004315.txt.gz
PGS004316
(GRS-HLA)
 PGP000547 |
Bui A et al. Front Genet (2023)
 Psoriasis psoriasis 11
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS004316/ScoringFiles/PGS004316.txt.gz
PGS004317
(GRS-noHLA)
 PGP000547 |
Bui A et al. Front Genet (2023)
 Psoriasis psoriasis 77
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS004317/ScoringFiles/PGS004317.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
PPM020383 PGS004315
(GRS-ALL)
 PSS011349|
European Ancestry|
654 individuals
 PGP000547 |
Bui A et al. Front Genet (2023)
 Reported Trait: Family history of psoriasis OR: 1.02 [1.0, 1.04] — R²: 0.0067 — —
PPM020384 PGS004315
(GRS-ALL)
 PSS011349|
European Ancestry|
654 individuals
 PGP000547 |
Bui A et al. Front Genet (2023)
 Reported Trait: Age of psoriasis onset OR: 0.71 [0.59, 0.85] — R²: 0.023 — —
PPM020385 PGS004316
(GRS-HLA)
 PSS011349|
European Ancestry|
654 individuals
 PGP000547 |
Bui A et al. Front Genet (2023)
 Reported Trait: Age of psoriasis onset OR: 0.46 [0.34, 0.63] — R²: 0.0398 — —
PPM020386 PGS004315
(GRS-ALL)
 PSS011349|
European Ancestry|
654 individuals
 PGP000547 |
Bui A et al. Front Genet (2023)
 Reported Trait: Age of type1 psoriasis onset OR: 0.82 [0.59, 0.85] — R²: 0.0206 — —
PPM020387 PGS004316
(GRS-HLA)
 PSS011349|
European Ancestry|
654 individuals
 PGP000547 |
Bui A et al. Front Genet (2023)
 Reported Trait: Age of type1 psoriasis onset OR: 0.69 [0.56, 0.86] — R²: 0.0216 — —
PPM020388 PGS004315
(GRS-ALL)
 PSS011349|
European Ancestry|
654 individuals
 PGP000547 |
Bui A et al. Front Genet (2023)
 Reported Trait: Psoriasis severity OR: 1.02 [1.0, 1.06] — R²: 0.061 — —
PPM020389 PGS004316
(GRS-HLA)
 PSS011349|
European Ancestry|
654 individuals
 PGP000547 |
Bui A et al. Front Genet (2023)
 Reported Trait: Psoriasis severity OR: 1.09 [1.03, 1.15] — R²: 0.077 — —
PPM020390 PGS004315
(GRS-ALL)
 PSS011349|
European Ancestry|
654 individuals
 PGP000547 |
Bui A et al. Front Genet (2023)
 Reported Trait: Total number of locations ever affected by psoriasis OR: 1.16 [1.11, 1.21] — R²: 0.061 — —
PPM020391 PGS004316
(GRS-HLA)
 PSS011349|
European Ancestry|
654 individuals
 PGP000547 |
Bui A et al. Front Genet (2023)
 Reported Trait: Total number of locations ever affected by psoriasis OR: 1.34 [1.24, 1.45] — R²: 0.077 — —
PPM020392 PGS004317
(GRS-noHLA)
 PSS011349|
European Ancestry|
654 individuals
 PGP000547 |
Bui A et al. Front Genet (2023)
 Reported Trait: Psoriasis in genital area OR: 0.97 [0.94, 1.0] — — — —
PPM020393 PGS004315
(GRS-ALL)
 PSS011349|
European Ancestry|
654 individuals
 PGP000547 |
Bui A et al. Front Genet (2023)
 Reported Trait: Initial presentation of psoriasis at elbow or knee OR: 0.97 [0.94, 0.99] — — — —
PPM020394 PGS004316
(GRS-HLA)
 PSS011349|
European Ancestry|
654 individuals
 PGP000547 |
Bui A et al. Front Genet (2023)
 Reported Trait: Initial presentation of psoriasis at elbow or knee OR: 0.92 [0.88, 0.96] — — — —
PPM020395 PGS004317
(GRS-noHLA)
 PSS011348|
European Ancestry|
345 individuals
 PGP000547 |
Bui A et al. Front Genet (2023)
 Reported Trait: Psoriasis in genital area β: -0.038 (0.019) — — — —
PPM020396 PGS004315
(GRS-ALL)
 PSS011348|
European Ancestry|
345 individuals
 PGP000547 |
Bui A et al. Front Genet (2023)
 Reported Trait: Psoriasis in genital area β: -0.037 (0.016) — — — —

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
PSS011348 — — 345 individuals,
52.0 % Male samples
 Mean = 49.0 years
Sd = 16.0 years		 European — UCSF —
PSS011349 — — 654 individuals,
48.0 % Male samples
 Mean = 41.0 years
Sd = 14.0 years		 European — NR —