Publication: Validation of Genome-Wide Polygenic Risk Scores for Coronary Artery Disease in French Canadians.

Information

PGS Catalog Publication (PGP) ID: PGP000008
PubMed ID: 31184202
doi: 10.1161/CIRCGEN.119.002481

Publication Date: June 11, 2019

Journal: Circ Genom Precis Med

Authors: Wünnemann F, Sin Lo K, Langford-Avelar A, Busseuil D, Dubé MP, Tardif JC, Lettre G.

PGS Associated with PGP000008

External PGS Evaluated By This Study

PGS 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 (PPM) ID Evaluated Score PGS Catalog Sample Set (PSS) ID Performance Source Trait PGS Effect Sizes
(per SD change)
PGS Classification Metrics Other Metrics Covariates Included in PGS Model PGS Performance: Other Relevant Information
PPM000030 PGS000013 (GPS_CAD) PSS000021 Wünnemann F et al. (2019) Ext. Reported Trait: Prevalent coronary artery disease cases OR: 1.64 [1.48 - 1.81] AUROC: 0.72 [0.7 - 0.74] age, sex, first four genetic PCs
PPM000031 PGS000013 (GPS_CAD) PSS000022 Wünnemann F et al. (2019) Ext. Reported Trait: Prevalent coronary artery disease cases OR: 1.55 [1.38 - 1.73] AUROC: 0.89 [0.88 - 0.91] age, sex, first four genetic PCs
PPM000032 PGS000013 (GPS_CAD) PSS000019 Wünnemann F et al. (2019) Ext. Reported Trait: Prevalent coronary artery disease cases OR: 1.69 [1.44 - 1.99] AUROC: 0.84 [0.81 - 0.87] age, sex, first four genetic PCs, cohort recruitment centre
PPM000033 PGS000013 (GPS_CAD) PSS000020 Wünnemann F et al. (2019) Ext. Reported Trait: Reccurent coronary artery disease events OR: 1.13 [1.06 - 1.22] age, sex, first four genetic PCs
PPM000034 PGS000018 (metaGRS_CAD) PSS000021 Wünnemann F et al. (2019) Ext. Reported Trait: Prevalent coronary artery disease cases OR: 1.74 [1.57 - 1.93] AUROC: 0.72 [0.7 - 0.75] age, sex, first four genetic PCs
PPM000035 PGS000018 (metaGRS_CAD) PSS000022 Wünnemann F et al. (2019) Ext. Reported Trait: Prevalent coronary artery disease cases OR: 1.6 [1.43 - 1.8] AUROC: 0.89 [0.88 - 0.91] age, sex, first four genetic PCs
PPM000036 PGS000018 (metaGRS_CAD) PSS000019 Wünnemann F et al. (2019) Ext. Reported Trait: Prevalent coronary artery disease cases OR: 1.75 [1.49 - 2.05] AUROC: 0.84 [0.81 - 0.87] age, sex, first four genetic PCs, cohort recruitment centre
PPM000037 PGS000018 (metaGRS_CAD) PSS000020 Wünnemann F et al. (2019) Ext. Reported Trait: Reccurent coronary artery disease events OR: 1.17 [1.08 - 1.26] age, sex, first four genetic PCs

Evaluated Samples

PGS Catalog Sample Set (PSS) ID Detailed Phenotype Description (e.g. ICD/SNOMED codes used to identify cases) Sample Numbers Sample Ancestry Additional Ancestry Description Cohort(s) Additional Sample/Cohort Information
PSS000019 Prevalent Coronary artery disease (CAD), where CAD is defined as previous diagnosis of myocardial infarction or revascularization procedures (percutaneous coronary intervention or coronary artery bypass grafting). 5,762 individuals
[ 173 cases, 5,589 controls]
41.2910447761194 % Male samples
European
(French Canadian)
CARTaGENE
PSS000020 Recurrent CAD event during the follow- up period (median follow-up time =3.9 years [range =1.1–7), where CAD is defined as previous diagnosis of myocardial infarction or revascularization procedures (percutaneous coronary intervention or coronary artery bypass grafting). 862 individuals
[ 446 cases, 416 controls]
European
(French Canadian)
MHI Phase 1
PSS000020 Recurrent CAD event during the follow- up period (median follow-up time =3.9 years [range =1.1–7), where CAD is defined as previous diagnosis of myocardial infarction or revascularization procedures (percutaneous coronary intervention or coronary artery bypass grafting). 2,333 individuals
[ 937 cases, 1,396 controls]
European
(French Canadian)
MHI Phase 2
PSS000021 Prevalent Coronary artery disease (CAD), where CAD is defined as previous diagnosis of myocardial infarction or revascularization procedures (percutaneous coronary intervention or coronary artery bypass grafting). 1,964 individuals
[ 974 cases, 976 controls]
72.69551934826883 % Male samples
European
(French Canadian)
MHI Phase 1
PSS000022 Prevalent Coronary artery disease (CAD), where CAD is defined as previous diagnosis of myocardial infarction or revascularization procedures (percutaneous coronary intervention or coronary artery bypass grafting). 3,309 individuals
[ 2,492 cases, 817 controls]
72.38319734058628 % Male samples
European
(French Canadian)
MHI Phase 2