PGS Publication: PGP000433

Publication Information (EuropePMC)
Title Combining European and U.S. risk prediction models with polygenic risk scores to refine cardiovascular prevention: the CoLaus|PsyCoLaus Study.
PubMed ID 36652418(Europe PMC)
doi 10.1093/eurjpc/zwad012
Publication Date Jan. 18, 2023
Journal Eur J Prev Cardiol
Author(s) de La Harpe R, Thorball CW, Redin C, Fournier S, Müller O, Strambo D, Michel P, Vollenweider P, Marques-Vidal P, Fellay J, Vaucher J.
Released in PGS Catalog: Feb. 8, 2023

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)
PGS000329
(PRS_CHD)
 PGP000100 |
Mars N et al. Nat Med (2020)
 Coronary heart disease coronary artery disease 6,423,165
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000329/ScoringFiles/PGS000329.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
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
PGS000116
(CAD_EJ2020)
 PGP000054 |
Elliott J et al. JAMA (2020)
 Coronary artery disease coronary artery disease 40,079
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000116/ScoringFiles/PGS000116.txt.gz - Check Terms/Licenses
PGS000117
(CVD_EJ2020)
 PGP000054 |
Elliott J et al. JAMA (2020)
 Cardiovascular disease cardiovascular disease 297,862
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000117/ScoringFiles/PGS000117.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
PPM017084 PGS000018
(metaGRS_CAD)
 PSS010120|
European Ancestry|
4,218 individuals
 PGP000433 |
de La Harpe R et al. Eur J Prev Cardiol (2023)
|Ext.		 Reported Trait: Atherosclerotic cardiovascular disease (incident and prevalent) OR: 1.36 [1.21, 1.52] AUROC: 0.772 [0.748, 0.796] — sex, age —
PPM017085 PGS000018
(metaGRS_CAD)
 PSS010122|
European Ancestry|
4,218 individuals
 PGP000433 |
de La Harpe R et al. Eur J Prev Cardiol (2023)
|Ext.		 Reported Trait: Coronary heart disease (incident and prevalent) OR: 1.63 [1.45, 1.83] AUROC: 0.793 [0.77, 0.816] — sex, age —
PPM017086 PGS000018
(metaGRS_CAD)
 PSS010119|
European Ancestry|
3,383 individuals
 PGP000433 |
de La Harpe R et al. Eur J Prev Cardiol (2023)
|Ext.		 Reported Trait: Incident atherosclerotic cardiovascular disease HR: 1.31 [1.13, 1.51] AUROC: 0.769 [0.734, 0.804]
C-index: 0.779 [0.746, 0.811]		 — sex, age, 10 principal components —
PPM017087 PGS000018
(metaGRS_CAD)
 PSS010121|
European Ancestry|
3,383 individuals
 PGP000433 |
de La Harpe R et al. Eur J Prev Cardiol (2023)
|Ext.		 Reported Trait: Incident coronary heart disease HR: 1.62 [1.43, 1.84] AUROC: 0.784 [0.757, 0.811]
C-index: 0.79 [0.764, 0.816]		 — sex, age, 10 principal components —
PPM017088 PGS000013
(GPS_CAD)
 PSS010120|
European Ancestry|
4,218 individuals
 PGP000433 |
de La Harpe R et al. Eur J Prev Cardiol (2023)
|Ext.		 Reported Trait: Atherosclerotic cardiovascular disease (incident and prevalent) OR: 1.34 [1.2, 1.5] AUROC: 0.766 [0.741, 0.792] — sex, age —
PPM017089 PGS000013
(GPS_CAD)
 PSS010122|
European Ancestry|
4,218 individuals
 PGP000433 |
de La Harpe R et al. Eur J Prev Cardiol (2023)
|Ext.		 Reported Trait: Coronary heart disease (incident and prevalent) OR: 1.6 [1.44, 1.79] AUROC: 0.784 [0.76, 0.808] — sex, age —
PPM017090 PGS000013
(GPS_CAD)
 PSS010119|
European Ancestry|
3,383 individuals
 PGP000433 |
de La Harpe R et al. Eur J Prev Cardiol (2023)
|Ext.		 Reported Trait: Incident atherosclerotic cardiovascular disease HR: 1.29 [1.13, 1.48] — — sex, age, 10 principal components —
PPM017091 PGS000013
(GPS_CAD)
 PSS010121|
European Ancestry|
3,383 individuals
 PGP000433 |
de La Harpe R et al. Eur J Prev Cardiol (2023)
|Ext.		 Reported Trait: Incident coronary heart disease HR: 1.59 [1.41, 1.8] — — sex, age, 10 principal components —
PPM017092 PGS000329
(PRS_CHD)
 PSS010120|
European Ancestry|
4,218 individuals
 PGP000433 |
de La Harpe R et al. Eur J Prev Cardiol (2023)
|Ext.		 Reported Trait: Atherosclerotic cardiovascular disease (incident and prevalent) OR: 1.33 [1.2, 1.49] AUROC: 0.765 [0.74, 0.79] — sex, age —
PPM017093 PGS000329
(PRS_CHD)
 PSS010122|
European Ancestry|
4,218 individuals
 PGP000433 |
de La Harpe R et al. Eur J Prev Cardiol (2023)
|Ext.		 Reported Trait: Coronary heart disease (incident and prevalent) OR: 1.59 [1.42, 1.77] AUROC: 0.779 [0.756, 0.803] — sex, age —
PPM017094 PGS000329
(PRS_CHD)
 PSS010119|
European Ancestry|
3,383 individuals
 PGP000433 |
de La Harpe R et al. Eur J Prev Cardiol (2023)
|Ext.		 Reported Trait: Incident atherosclerotic cardiovascular disease HR: 1.29 [1.12, 1.47] — — sex, age, 10 principal components —
PPM017095 PGS000329
(PRS_CHD)
 PSS010121|
European Ancestry|
3,383 individuals
 PGP000433 |
de La Harpe R et al. Eur J Prev Cardiol (2023)
|Ext.		 Reported Trait: Incident coronary heart disease HR: 1.57 [1.4, 1.77] — — sex, age, 10 principal components —
PPM017096 PGS000117
(CVD_EJ2020)
 PSS010120|
European Ancestry|
4,218 individuals
 PGP000433 |
de La Harpe R et al. Eur J Prev Cardiol (2023)
|Ext.		 Reported Trait: Atherosclerotic cardiovascular disease (incident and prevalent) OR: 1.36 [1.21, 1.52] AUROC: 0.768 [0.743, 0.794] — sex, age —
PPM017097 PGS000117
(CVD_EJ2020)
 PSS010119|
European Ancestry|
3,383 individuals
 PGP000433 |
de La Harpe R et al. Eur J Prev Cardiol (2023)
|Ext.		 Reported Trait: Incident atherosclerotic cardiovascular disease HR: 1.3 [1.13, 1.5] — — sex, age, 10 principal components —
PPM017098 PGS000116
(CAD_EJ2020)
 PSS010122|
European Ancestry|
4,218 individuals
 PGP000433 |
de La Harpe R et al. Eur J Prev Cardiol (2023)
|Ext.		 Reported Trait: Coronary heart disease (incident and prevalent) OR: 1.69 [1.5, 1.92] AUROC: 0.781 [0.575, 0.805] — sex, age —
PPM017099 PGS000116
(CAD_EJ2020)
 PSS010121|
European Ancestry|
3,383 individuals
 PGP000433 |
de La Harpe R et al. Eur J Prev Cardiol (2023)
|Ext.		 Reported Trait: Incident coronary heart disease HR: 1.67 [1.46, 1.92] — — sex, age, 10 principal components —

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
PSS010119 Atherosclerotic cardiovacular disease (ASCVD), comprising non-fatal acute myocardial infarction, death of cardiovascular origin (comprising sudden death, ischemic death) and fatal and non-fatal ischaemic stroke (including transient ischaemic attack) using relevant medical records and ICD codes. All events were adjudicated by two expert. More details in PMID: 33838036 Median = [10.7, 14.6] years
[
  • 190 cases
  • , 3,193 controls
]
,
45.0 % Male samples
 Mean = 52.3 years European — CoLaus right censored was death or latest evidence of good health, participant with statine therapy at baseline were excluded
PSS010120 Atherosclerotic cardiovacular disease (ASCVD), comprising non-fatal acute myocardial infarction, death of cardiovascular origin (comprising sudden death, ischemic death) and fatal and non-fatal ischaemic stroke (including transient ischaemic attack) using relevant medical records and ICD codes. All events were adjudicated by two expert. More details in PMID: 33838036 Median = [10.6, 14.6] years
[
  • 363 cases
  • , 3,855 controls
]
,
47.0 % Male samples
 Mean = 53.4 years European — CoLaus right censored was death or latest evidence of good health
PSS010121 Coronary artery disease (CAD), ccomprising either non-fatal myocardial infarction, death from coronary heart disease or symptomatic stable angina followed by a revascularization procedure, either by percutaneous coronary intervention (PCI), or by coronary artery bypass grafting (CABG) using relevant medical records and ICD codes. All events were adjudicated by two expert. More details in PMID: 33838036 Median = [10.7, 14.6] years
[
  • 195 cases
  • , 3,188 controls
]
,
45.0 % Male samples
 Mean = 52.3 years European — CoLaus right censored was death or latest evidence of good health, participant with statine therapy at baseline were excluded
PSS010122 Coronary artery disease (CAD), ccomprising either non-fatal myocardial infarction, death from coronary heart disease or symptomatic stable angina followed by a revascularization procedure, either by percutaneous coronary intervention (PCI), or by coronary artery bypass grafting (CABG) using relevant medical records and ICD codes. All events were adjudicated by two expert. More details in PMID: 33838036 Median = [10.6, 14.6] years
[
  • 388 cases
  • , 3,830 controls
]
,
47.0 % Male samples
 Mean = 53.4 years European — CoLaus right censored was death or latest evidence of good health