PGS Publication: PGP000516

Publication Information (EuropePMC)
Title Prostate cancer genetic risk and associated aggressive disease in men of African ancestry
PubMed ID 38052806(Europe PMC)
doi 10.1038/s41467-023-43726-w
Publication Date Nov. 16, 2023
Journal Nature Communications
Author(s) Soh PXY, Mmekwa N, Petersen DC, Gheybi K, van Zyl S, Jiang J, Patrick SM, Campbell R, Jaratlerdseri W, Mutambirwa SBA, Bornman MSR, Hayes VM.
Released in PGS Catalog: Dec. 15, 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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Ancestry legend
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Multi-ancestry (excluding European)
African
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South Asian
Additional Asian Ancestries
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Greater Middle Eastern
Hispanic or Latin American
Additional Diverse Ancestries
Not Reported

External PGS Evaluated 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)
PGS003460
(PRS278_PCa)
 PGP000453 |
Chen F et al. Eur Urol (2023)
 Prostate cancer prostate carcinoma 278
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003460/ScoringFiles/PGS003460.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
PPM019149 PGS003460
(PRS278_PCa)
 PSS011212|
African Ancestry|
113 individuals
 PGP000516 |
Soh P X.Y. et al. Nature Communications (2023)
|Ext.		 Reported Trait: Aggresiveness of prostate cancer (ISUP = 3, 4, 5 vs ISUP = 1, 2) OR: 1.13 [0.67, 1.9] — — age —
PPM019148 PGS003460
(PRS278_PCa)
 PSS011212|
African Ancestry|
113 individuals
 PGP000516 |
Soh P X.Y. et al. Nature Communications (2023)
|Ext.		 Reported Trait: Aggresiveness of prostate cancer (ISUP = 4, 5 or PSA >= 20 ng/ml vs the rest) OR: 1.24 [0.65, 2.34] — — age —

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
PSS011212 — —
[
  • 113 cases
  • , 0 controls
]
,
100.0 % Male samples
 Median = 66.9 years
Range = [45.0, 99.0] years		 Sub-Saharan African > 98.4% African Ancestry NR —