Polygenic Score (PGS) ID: PGS002798

Predicted Trait
Reported Trait Prostate cancer
Mapped Trait(s) prostate carcinoma (EFO_0001663)
Released in PGS Catalog: Oct. 19, 2022
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Score Details

Score Construction
PGS Name GRS128_Afr
Development Method
Name Genome-wide significant SNPs
Parameters p<5E-08, r2<0.2
Variants
Original Genome Build NR
Number of Variants 128
Effect Weight Type log(OR)
PGS Source
PGS Catalog Publication (PGP) ID PGP000379
Citation (link to publication) Shi Z et al. Eur Urol Open Sci (2022)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 70.6%
African: 16.8%
East Asian: 9.2%
Hispanic or Latin American: 3.4%
407,351 individuals (100%)
PGS Evaluation
African: 100%
1 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: GCST002944
Europe PMC: 26034056
 3,226 individuals East Asian CMHS, GERA, ProHealth, RPGEH
[
  • 4,853 cases
  • , 4,678 controls
]
 African unspecified NR
GWAS Catalog: GCST004982
Europe PMC: 29117387
 11,782 individuals African American or Afro-Caribbean NR
GWAS Catalog: GCST004982
Europe PMC: 29117387
 932 individuals Sub-Saharan African NR
GWAS Catalog: GCST004982
Europe PMC: 29117387
 8,298 individuals African unspecified, African American or Afro-Caribbean NR
GWAS Catalog: GCST001298
Europe PMC: 22037553
 3,749 individuals African American or Afro-Caribbean NR
GWAS Catalog: GCST001298
Europe PMC: 22037553
 5,388 individuals European NR
GWAS Catalog: GCST002606
Europe PMC: 25217961
 2,080 individuals Hispanic or Latin American NR
GWAS Catalog: GCST002606
Europe PMC: 25217961
 6,954 individuals East Asian NR
GWAS Catalog: GCST002606
Europe PMC: 25217961
 10,463 individuals Sub-Saharan African, African American or Afro-Caribbean NR
GWAS Catalog: GCST002606
Europe PMC: 25217961
 67,543 individuals European NR
GWAS Catalog: GCST002944
Europe PMC: 26034056
 2,251 individuals African American or Afro-Caribbean CMHS, GERA, ProHealth, RPGEH
GWAS Catalog: GCST002944
Europe PMC: 26034056
 3,629 individuals Hispanic or Latin American CMHS, GERA, ProHealth, RPGEH
GWAS Catalog: GCST002944
Europe PMC: 26034056
 37,272 individuals European CMHS, GERA, ProHealth, RPGEH

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
PPM015508 PSS009966|
African Ancestry|
30,472 individuals
 PGP000379 |
Shi Z et al. Eur Urol Open Sci (2022)
 Reported Trait: Prostate cancer OR: 1.44 [1.4, 1.47] — — age, 10 genetic 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
PSS009966 — 30,472 individuals,
100.0 % Male samples
 Median = 61.0 years African unspecified — NR —