Polygenic Score (PGS) ID: PGS001867

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-PLR_618
Development Method
Name Penalized regression (bigstatsr)
Parameters HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 9,708
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
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
391,124 individuals European UK (+ Ireland) UKB

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
PPM009825 PSS009342|
European Ancestry|
10,810 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Genital prolapse Partial Correlation (partial-r): 0.0425 [0.0237, 0.0613] sex, age, birth date, deprivation index, 16 PCs
PPM009826 PSS009116|
European Ancestry|
2,578 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Genital prolapse Partial Correlation (partial-r): 0.0481 [0.0094, 0.0867] sex, age, birth date, deprivation index, 16 PCs
PPM009828 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): -0.0042 [-0.0952, 0.0869] sex, age, birth date, deprivation index, 16 PCs
PPM009829 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): 0.0503 [0.0138, 0.0866] sex, age, birth date, deprivation index, 16 PCs
PPM009830 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): 0.0167 [-0.0403, 0.0735] sex, age, birth date, deprivation index, 16 PCs
PPM009831 PSS007789|
African Ancestry|
1,584 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Genital prolapse Partial Correlation (partial-r): 0.0381 [-0.0115, 0.0875] sex, age, birth date, deprivation index, 16 PCs
PPM009832 PSS008893|
African Ancestry|
2,113 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Genital prolapse Partial Correlation (partial-r): 0.037 [-0.0059, 0.0797] sex, age, birth date, deprivation index, 16 PCs
PPM009827 PSS008670|
European Ancestry|
3,676 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Genital prolapse Partial Correlation (partial-r): 0.0389 [0.0065, 0.0712] 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