Polygenic Score (PGS) ID: PGS002302

Predicted Trait
Reported Trait Glioma
Mapped Trait(s) glioma (EFO_0005543)
Released in PGS Catalog: June 9, 2022
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Score Details

Score Construction
PGS Name PRS28_glioma
Development Method
Name Genome-wide significant variants
Parameters r2>=0.93
Variants
Original Genome Build hg19
Number of Variants 28
Effect Weight Type NR
PGS Source
PGS Catalog Publication (PGP) ID PGP000328
Citation (link to publication) Choi J et al. Int J Cancer (2020)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
30,659 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: GCST004347
Europe PMC: 28346443
30,659 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
PPM013031 PSS009663|
European Ancestry|
312 individuals
PGP000328 |
Choi J et al. Int J Cancer (2020)
Reported Trait: Glioma AUROC: 0.61 [0.57, 0.64]
PPM013039 PSS009663|
European Ancestry|
312 individuals
PGP000328 |
Choi J et al. Int J Cancer (2020)
Reported Trait: Glioma Hazard ratio (HR top 5% vs average): 2.55 [1.72, 3.77] Age, birth cohort, genotyping array, top 10 PCs for ancestry and sex (for nonsex specific cancer only)

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
PSS009663 glioma (ICD-9 = 191 or ICD-10 = C71; ICD-O: 9380-9480) 312 individuals European UKB