Polygenic Score (PGS) ID: PGS002078

Predicted Trait
Reported Trait Genital prolapse
Mapped Trait(s) prolapse of female genital organ (MONDO_0001592)
Additional Trait Information genitourinary
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-ldpred2_618
Development Method
Name LDpred2 (bigsnpr)
Parameters LDpred2-auto using HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 774,553
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000263
Citation (link to publication) Privé F et al. Am J Hum Genet (2022)
Ancestry Distribution
Score Development/Training
European: 100%
391,124 individuals (100%)
PGS Evaluation
European: 37.5%
African: 25%
East Asian: 12.5%
Greater Middle Eastern: 12.5%
South Asian: 12.5%
8 Sample Sets

Development Samples

Score Development/Training
Study Identifiers Sample Numbers Sample Ancestry Cohort(s) Phenotype Definitions & Methods Age of Study Participants Participant Follow-up Time Additional Ancestry Description Additional Sample/Cohort Information
— 391,124 individuals European UKB — — — UK (+ Ireland) —

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
PPM011485 PSS009342|
European Ancestry|
10,810 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Genital prolapse — — Partial Correlation (partial-r): 0.0672 [0.0484, 0.086] sex, age, birth date, deprivation index, 16 PCs —
PPM011486 PSS009116|
European Ancestry|
2,578 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Genital prolapse — — Partial Correlation (partial-r): 0.0581 [0.0193, 0.0966] sex, age, birth date, deprivation index, 16 PCs —
PPM011487 PSS008670|
European Ancestry|
3,676 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Genital prolapse — — Partial Correlation (partial-r): 0.0568 [0.0244, 0.089] sex, age, birth date, deprivation index, 16 PCs —
PPM011488 PSS008444|
Greater Middle Eastern Ancestry|
483 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Genital prolapse — — Partial Correlation (partial-r): 0.0251 [-0.0661, 0.1158] sex, age, birth date, deprivation index, 16 PCs —
PPM011489 PSS008224|
South Asian Ancestry|
2,902 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Genital prolapse — — Partial Correlation (partial-r): 0.0422 [0.0057, 0.0786] sex, age, birth date, deprivation index, 16 PCs —
PPM011490 PSS008005|
East Asian Ancestry|
1,207 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Genital prolapse — — Partial Correlation (partial-r): 0.0112 [-0.0457, 0.0681] sex, age, birth date, deprivation index, 16 PCs —
PPM011491 PSS007789|
African Ancestry|
1,584 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Genital prolapse — — Partial Correlation (partial-r): 0.0278 [-0.0218, 0.0772] sex, age, birth date, deprivation index, 16 PCs —
PPM011492 PSS008893|
African Ancestry|
2,113 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Genital prolapse — — Partial Correlation (partial-r): 0.0403 [-0.0025, 0.083] sex, age, birth date, deprivation index, 16 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
PSS008005 — — 1,207 individuals — East Asian China (East Asia) UKB —
PSS008444 — — 483 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS007789 — — 1,584 individuals — African American or Afro-Caribbean Carribean UKB —
PSS008670 — — 3,676 individuals — European Italy (South Europe) UKB —
PSS009116 — — 2,578 individuals — European Poland (NE Europe) UKB —
PSS008893 — — 2,113 individuals — African unspecified Nigeria (West Africa) UKB —
PSS009342 — — 10,810 individuals — European UK (+ Ireland) UKB —
PSS008224 — — 2,902 individuals — South Asian India (South Asia) UKB —