Polygenic Score (PGS) ID: PGS001791

Predicted Trait
Reported Trait Idiopathic pulmonary fibrosis
Mapped Trait(s) idiopathic pulmonary fibrosis (EFO_0000768)
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_IPF_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 910,439
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: 64.6%
East Asian: 30.1%
Additional Asian Ancestries: 2.6%
Additional Diverse Ancestries: 1.7%
African: 1%
848,799 individuals (100%)
PGS Evaluation
European: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
[
  • 169 cases
  • , 8,368 controls
]
African unspecified G&H
[
  • 319 cases
  • , 14,452 controls
]
Native American BioMe
[
  • 1,210 cases
  • , 254,409 controls
]
East Asian BioMe
[
  • 4,992 cases
  • , 542,932 controls
]
European BBJ, TWB
[
  • 51 cases
  • , 21,897 controls
]
Asian unspecified 9 cohorts
  • BioMe
  • ,BioVU
  • ,EB
  • ,FinnGen
  • ,HUNT
  • ,LifeLines
  • ,MGBB
  • ,MGI
  • ,UCLA

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
PPM009295 PSS007714|
European Ancestry|
347,350 individuals
PGP000262 |
Wang Y et al. medRxiv (2021)
|Pre
Reported Trait: Idiopathic pulmonary fibrosis AUROC: 0.758 Nagelkerke's R2 (covariates regressed out): 0.00593 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
PSS007714
[
  • 1,052 cases
  • , 346,297 controls
]
European UKB