Polygenic Score (PGS) ID: PGS002288

Predicted Trait
Reported Trait Pelvic organ prolapse
Mapped Trait(s) pelvic organ prolapse (EFO_0004710)
Additional Trait Information Female gynecologycal condition
Released in PGS Catalog: June 29, 2022
Download Score FTP directory
Terms and Licenses
PGS obtained from the Catalog should be cited appropriately, and used in accordance with any licensing restrictions set by the authors. See EBI Terms of Use (https://www.ebi.ac.uk/about/terms-of-use/) for additional details.

Score Details

Score Construction
PGS Name PRS_POP
Development Method
Name LDpred
Parameters LD-clumping (r2 threshold = 0.99; varying the fraction of causal SNPs = [Inf, 1, 0.3, 0.1, 0.03, 0.01, 0.003, 0.001, 0.0003, 0.0001]
Variants
Original Genome Build GRCh37
Number of Variants 3,242,959
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000314
Citation (link to publication) Pujol-Gualdo N et al. Nat Commun (2022)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
447,544 individuals (100%)
PGS Evaluation
European: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST90102470
[
  • 20,118 cases
  • , 427,426 controls
]
,
0.0 % Male samples
 European
(Icelandic, British, Finnish)		 FinnGen, UKB, deCODE

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
PPM012986 PSS009640|
European Ancestry|
98,656 individuals
 PGP000314 |
Pujol-Gualdo N et al. Nat Commun (2022)
 Reported Trait: Incident pelvic organ prolapse cases HR: 1.31 [1.25, 1.37] C-index: 0.592 — 10 PCs, and seven batche indicators —

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
PSS009640 — —
[
  • 2,517 cases
  • , 96,139 controls
]
,
0.0 % Male samples
 — European — EB —