Polygenic Score (PGS) ID: PGS004860

Predicted Trait
Reported Trait Lung cancer
Mapped Trait(s) lung carcinoma (EFO_0001071)
Released in PGS Catalog: July 31, 2024
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Score Details

Score Construction
PGS Name Genome-wide-PRS
Development Method
Name LDpred2
Parameters r2>0.5, p-value = 5E-8
Variants
Original Genome Build GRCh37
Number of Variants 1,143,554
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000607
Citation (link to publication) Boumtje V et al. EBioMedicine (2024)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
85,716 individuals (100%)
PGS Evaluation
European: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST004748
Europe PMC: 28604730
 85,716 individuals European NR

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
PPM021091 PSS011520|
European Ancestry|
24,012 individuals
 PGP000607 |
Boumtje V et al. EBioMedicine (2024)
 Reported Trait: Incident lung cancer OR: 1.33 AUROC: 0.893 [0.887, 0.898] R²: 0.49 Sex, age,BMI, smocking status(ever or never smoker), and the first 10 ancestry-based PCA —

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
PSS011520 Lung cancer diagnosis was confirmed by pathological examination using resected specimens. —
[
  • 4,002 cases
  • , 20,010 controls
]
,
45.72 % Male samples
 Mean = 59.65 years European
(French cancadian)		 — CARTaGENE, LORD CARTaGENE data application number 890519