Polygenic Score (PGS) ID: PGS001788

Predicted Trait
Reported Trait Chronic obstructive pulmonary disease
Mapped Trait(s) chronic obstructive pulmonary disease (EFO_0000341)
Released in PGS Catalog: Sept. 8, 2022
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Terms and Licenses
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Score Details

Score Construction
PGS Name 1kgeur_gbmi_leaveUKBBout_COPD_pst_eff_a1_b0.5_phiauto
Development Method
Name PRS-CS-auto
Parameters effective sample size and other defualt parameters
Variants
Original Genome Build GRCh37
Number of Variants 910,082
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000262
Citation (link to publication) Wang Y et al. medRxiv (2021) Preprint
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 60.7%
East Asian: 33.2%
African: 2.4%
Additional Asian Ancestries: 2.2%
Additional Diverse Ancestries: 1.5%
992,289 individuals (100%)
PGS Evaluation
European: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
[
  • 1,866 cases
  • , 21,705 controls
]
African unspecified G&H
[
  • 1,503 cases
  • , 13,583 controls
]
Native American BioMe, BioVU, CCPM, MGI, UCLA
[
  • 19,044 cases
  • , 310,689 controls
]
East Asian BioMe, CCPM, UCLA
[
  • 44,249 cases
  • , 557,702 controls
]
European BBJ, CKB, TWB, UCLA
[
  • 484 cases
  • , 21,464 controls
]
Asian unspecified 13 cohorts
  • BioMe
  • ,BioVU
  • ,CCPM
  • ,EB
  • ,FinnGen
  • ,GS:SFHS
  • ,HUNT
  • ,LifeLines
  • ,MGBB
  • ,MGI
  • ,QSKIN
  • ,UCLA
  • ,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
PPM009292 PSS007711|
European Ancestry|
337,168 individuals
PGP000262 |
Wang Y et al. medRxiv (2021)
|Pre
Reported Trait: Chronic obstructive pulmonary disease AUROC: 0.715 Nagelkerke's R2 (covariates regressed out): 0.0163 sex,age,age2,age*sex,age^2*sex, 20PCs

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
PSS007711
[
  • 12,063 cases
  • , 325,104 controls
]
European UKB