Polygenic Score (PGS) ID: PGS002772

Predicted Trait
Reported Trait Venous thromboembolism
Mapped Trait(s) venous thromboembolism (EFO_0004286)
Released in PGS Catalog: Nov. 7, 2022
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Score Details

Score Construction
PGS Name Venous_thromboembolism_prscs
Development Method
Name PRS-CS
Parameters PRS-CS-auto in FinnGen, LD reference panel: European ancestry in 1000 Genomes
Variants
Original Genome Build GRCh38
Number of Variants 1,052,790
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000364
Citation (link to publication) Mars N et al. Am J Hum Genet (2022)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 88.7%
African: 7.9%
Hispanic or Latin American: 3.4%
650,119 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: GCST009097
Europe PMC: 31676865
51,661 individuals African American or Afro-Caribbean NR
GWAS Catalog: GCST009097
Europe PMC: 31676865
21,868 individuals Hispanic or Latin American NR
GWAS Catalog: GCST009097
Europe PMC: 31676865
576,590 individuals European MVP, 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
PPM014972 PSS009939|
European Ancestry|
39,444 individuals
PGP000364 |
Mars N et al. Am J Hum Genet (2022)
Reported Trait: Venous thromboembolism OR: 1.41 [1.34, 1.48] age, sex, 10 PCs, technical covariates

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
PSS009939 39,444 individuals European
(Finnish)
FinnGen