Polygenic Score (PGS) ID: PGS003460

Predicted Trait
Reported Trait Prostate cancer
Mapped Trait(s) prostate carcinoma (EFO_0001663)
Released in PGS Catalog: March 24, 2023
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Score Details

Score Construction
PGS Name PRS278_PCa
Development Method
Name Genome-wide significant variants
Parameters NR
Variants
Original Genome Build NR
Number of Variants 278
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000453
Citation (link to publication) Chen F et al. Eur Urol (2023)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 69.5%
African: 16.7%
East Asian: 10.7%
Hispanic or Latin American: 3.1%
255,607 individuals (100%)
PGS Evaluation
African: 100%
2 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST011049
Europe PMC: 33398198
 177,526 individuals European NR
GWAS Catalog: GCST011049
Europe PMC: 33398198
 21,354 individuals African American or Afro-Caribbean,African unspecified NR
GWAS Catalog: GCST011049
Europe PMC: 33398198
 27,420 individuals East Asian NR
GWAS Catalog: GCST011049
Europe PMC: 33398198
 7,953 individuals Hispanic or Latin American NR
GWAS Catalog: GCST011047
Europe PMC: 33398198
 21,354 individuals African American or Afro-Caribbean, African unspecified NR

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) 		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
PPM017264 PSS010182|
African Ancestry|
801 individuals
 PGP000453 |
Chen F et al. Eur Urol (2023)
 Reported Trait: Prostate cancer OR: 1.68 [1.45, 1.94] — — — —
PPM019149 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 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
PSS010182 — —
[
  • 405 cases
  • , 396 controls
]
,
100.0 % Male samples
 — African unspecified — MADCaP —
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 —