PGS Publication: PGP000008

Publication Information (EuropePMC)
Title Validation of Genome-Wide Polygenic Risk Scores for Coronary Artery Disease in French Canadians.
PubMed ID 31184202(Europe PMC)
doi 10.1161/CIRCGEN.119.002481
Publication Date June 11, 2019
Journal Circ Genom Precis Med
Author(s) Wünnemann F, Sin Lo K, Langford-Avelar A, Busseuil D, Dubé MP, Tardif JC, Lettre G.
Released in PGS Catalog: Oct. 14, 2019

Associated Polygenic Score(s)

Filter PGS by Participant Ancestry
Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
List of ancestries includes:
Display options:
Ancestry legend
Multi-ancestry (including European)
Multi-ancestry (excluding European)
African
East Asian
South Asian
Additional Asian Ancestries
European
Greater Middle Eastern
Hispanic or Latin American
Additional Diverse Ancestries
Not Reported

External PGS Evaluated By This Publication

Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution
GWAS
Dev
Eval
 Scoring File (FTP Link)
PGS000018
(metaGRS_CAD)
 PGP000007 |
Inouye M et al. J Am Coll Cardiol (2018)
 Coronary artery disease coronary artery disease 1,745,179
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000018/ScoringFiles/PGS000018.txt.gz
PGS000013
(GPS_CAD)
 PGP000006 |
Khera AV et al. Nat Genet (2018)
 Coronary artery disease coronary artery disease 6,630,150
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000013/ScoringFiles/PGS000013.txt.gz - Check Terms/Licenses

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) 		Evaluated Score 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
PPM000030 PGS000013
(GPS_CAD)
 PSS000021|
European Ancestry|
1,964 individuals
 PGP000008 |
Wünnemann F et al. Circ Genom Precis Med (2019)
|Ext.		 Reported Trait: Coronary artery disease (prevalent) 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|
European Ancestry|
3,309 individuals
 PGP000008 |
Wünnemann F et al. Circ Genom Precis Med (2019)
|Ext.		 Reported Trait: Coronary artery disease (prevalent) 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|
European Ancestry|
5,762 individuals
 PGP000008 |
Wünnemann F et al. Circ Genom Precis Med (2019)
|Ext.		 Reported Trait: Coronary artery disease (prevalent) 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|
European Ancestry|
3,195 individuals
 PGP000008 |
Wünnemann F et al. Circ Genom Precis Med (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|
European Ancestry|
1,964 individuals
 PGP000008 |
Wünnemann F et al. Circ Genom Precis Med (2019)
|Ext.		 Reported Trait: Coronary artery disease (prevalent) 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|
European Ancestry|
3,309 individuals
 PGP000008 |
Wünnemann F et al. Circ Genom Precis Med (2019)
|Ext.		 Reported Trait: Coronary artery disease (prevalent) 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|
European Ancestry|
5,762 individuals
 PGP000008 |
Wünnemann F et al. Circ Genom Precis Med (2019)
|Ext.		 Reported Trait: Coronary artery disease (prevalent) 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|
European Ancestry|
3,195 individuals
 PGP000008 |
Wünnemann F et al. Circ Genom Precis Med (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 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
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). —
[
  • 173 cases
  • , 5,589 controls
]
,
41.29 % 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). —
[
  • 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). —
[
  • 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). —
[
  • 974 cases
  • , 976 controls
]
,
72.7 % 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). —
[
  • 2,492 cases
  • , 817 controls
]
,
72.38 % Male samples
 — European
(French Canadian)		 — MHI Phase 2