Polygenic Score (PGS) ID: PGS002062

Predicted Trait
Reported Trait Chronic airway obstruction
Mapped Trait(s) chronic obstructive pulmonary disease (EFO_0000341)
Additional Trait Information respiratory
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-ldpred2_496
Development Method
Name LDpred2 (bigsnpr)
Parameters LDpred2-auto using HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 811,003
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
PPM011359 PSS009099|
European Ancestry|
3,959 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Chronic airway obstruction Partial Correlation (partial-r): 0.0118 [-0.0194, 0.043] sex, age, birth date, deprivation index, 16 PCs
PPM011360 PSS008653|
European Ancestry|
6,311 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Chronic airway obstruction Partial Correlation (partial-r): 0.0499 [0.0252, 0.0745] sex, age, birth date, deprivation index, 16 PCs
PPM011361 PSS008427|
Greater Middle Eastern Ancestry|
1,122 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Chronic airway obstruction Partial Correlation (partial-r): 0.0345 [-0.0246, 0.0933] sex, age, birth date, deprivation index, 16 PCs
PPM011362 PSS008207|
South Asian Ancestry|
5,753 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Chronic airway obstruction Partial Correlation (partial-r): 0.0272 [0.0013, 0.053] sex, age, birth date, deprivation index, 16 PCs
PPM011363 PSS007989|
East Asian Ancestry|
1,729 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Chronic airway obstruction Partial Correlation (partial-r): -0.0227 [-0.07, 0.0248] sex, age, birth date, deprivation index, 16 PCs
PPM011364 PSS007772|
African Ancestry|
2,270 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Chronic airway obstruction Partial Correlation (partial-r): 0.0422 sex, age, birth date, deprivation index, 16 PCs
PPM011365 PSS008876|
African Ancestry|
3,652 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Chronic airway obstruction Partial Correlation (partial-r): -0.0266 [-0.0591, 0.0059] sex, age, birth date, deprivation index, 16 PCs
PPM011358 PSS009325|
European Ancestry|
18,735 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Chronic airway obstruction Partial Correlation (partial-r): 0.047 [0.0327, 0.0613] 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
PSS008427 1,122 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB
PSS009099 3,959 individuals European Poland (NE Europe) UKB
PSS008653 6,311 individuals European Italy (South Europe) UKB
PSS008876 3,652 individuals African unspecified Nigeria (West Africa) UKB
PSS008207 5,753 individuals South Asian India (South Asia) UKB
PSS009325 18,735 individuals European UK (+ Ireland) UKB
PSS007989 1,729 individuals East Asian China (East Asia) UKB
PSS007772 2,270 individuals African American or Afro-Caribbean Carribean UKB