Polygenic Score (PGS) ID: PGS002049

Predicted Trait
Reported Trait Pulmonary heart disease
Mapped Trait(s) cor pulmonale (MONDO_0004596)
Additional Trait Information circulatory system
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-ldpred2_415
Development Method
Name LDpred2 (bigsnpr)
Parameters LDpred2-auto using HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 222,371
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
PPM011254 PSS009312|
European Ancestry|
19,808 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Pulmonary heart disease Partial Correlation (partial-r): 0.0397 [0.0258, 0.0536] sex, age, birth date, deprivation index, 16 PCs
PPM011255 PSS009086|
European Ancestry|
4,113 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Pulmonary heart disease Partial Correlation (partial-r): 0.0663 [0.0357, 0.0967] sex, age, birth date, deprivation index, 16 PCs
PPM011256 PSS008640|
European Ancestry|
6,617 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Pulmonary heart disease Partial Correlation (partial-r): 0.0336 [0.0095, 0.0577] sex, age, birth date, deprivation index, 16 PCs
PPM011257 PSS008414|
Greater Middle Eastern Ancestry|
1,190 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Pulmonary heart disease Partial Correlation (partial-r): -0.0019 [-0.0592, 0.0554] sex, age, birth date, deprivation index, 16 PCs
PPM011258 PSS008194|
South Asian Ancestry|
6,283 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Pulmonary heart disease Partial Correlation (partial-r): 0.0331 [0.0083, 0.0578] sex, age, birth date, deprivation index, 16 PCs
PPM011259 PSS007976|
East Asian Ancestry|
1,805 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Pulmonary heart disease Partial Correlation (partial-r): 0.0075 [-0.0389, 0.0539] sex, age, birth date, deprivation index, 16 PCs
PPM011260 PSS007759|
African Ancestry|
2,457 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Pulmonary heart disease Partial Correlation (partial-r): 0.014 [-0.0257, 0.0537] sex, age, birth date, deprivation index, 16 PCs
PPM011261 PSS008863|
African Ancestry|
3,858 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Pulmonary heart disease Partial Correlation (partial-r): 0.0322 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
PSS007976 1,805 individuals East Asian China (East Asia) UKB
PSS008414 1,190 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB
PSS007759 2,457 individuals African American or Afro-Caribbean Carribean UKB
PSS009312 19,808 individuals European UK (+ Ireland) UKB
PSS009086 4,113 individuals European Poland (NE Europe) UKB
PSS008863 3,858 individuals African unspecified Nigeria (West Africa) UKB
PSS008640 6,617 individuals European Italy (South Europe) UKB
PSS008194 6,283 individuals South Asian India (South Asia) UKB