PGS Publication: PGP000252

Publication Information (EuropePMC)
Title Interactions Between Enhanced Polygenic Risk Scores and Lifestyle for Cardiovascular Disease, Diabetes, and Lipid Levels.
PubMed ID 33433237(Europe PMC)
doi 10.1161/circgen.120.003128
Publication Date Jan. 12, 2021
Journal Circ Genom Precis Med
Author(s) Ye Y, Chen X, Han J, Jiang W, Natarajan P, Zhao H.
Released in PGS Catalog: Nov. 4, 2021

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

PGS Developed 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)
PGS001355
(CAD_AnnoPred_PRS)
 PGP000252 |
Ye Y et al. Circ Genom Precis Med (2021)
 Coronary artery disease coronary artery disease 2,994,055
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001355/ScoringFiles/PGS001355.txt.gz
PGS001356
(AF_AnnoPred_PRS)
 PGP000252 |
Ye Y et al. Circ Genom Precis Med (2021)
 Atrial fibrillation atrial fibrillation 2,996,793
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001356/ScoringFiles/PGS001356.txt.gz
PGS001357
(T2D_AnnoPred_PRS)
 PGP000252 |
Ye Y et al. Circ Genom Precis Med (2021)
 Type 2 diabetes (T2D) type 2 diabetes mellitus 2,996,761
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001357/ScoringFiles/PGS001357.txt.gz

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
PPM005187 PGS001355
(CAD_AnnoPred_PRS)
 PSS003605|
European Ancestry|
176,238 individuals
 PGP000252 |
Ye Y et al. Circ Genom Precis Med (2021)
 Reported Trait: Coronary artery disease — AUROC: 0.6425 — Age, sex, PCs(1-10) —
PPM005188 PGS001356
(AF_AnnoPred_PRS)
 PSS003604|
European Ancestry|
178,651 individuals
 PGP000252 |
Ye Y et al. Circ Genom Precis Med (2021)
 Reported Trait: Atrial fibrillation — AUROC: 0.6321 — Age, sex, PCs(1-10) —
PPM005189 PGS001357
(T2D_AnnoPred_PRS)
 PSS003606|
European Ancestry|
178,138 individuals
 PGP000252 |
Ye Y et al. Circ Genom Precis Med (2021)
 Reported Trait: Type 2 diabetes — AUROC: 0.6446 — Age, sex, PCs(1-10) —

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
PSS003604 — —
[
  • 4,025 cases
  • , 174,626 controls
]
 Mean = 56.81 years European — UKB —
PSS003605 — —
[
  • 3,467 cases
  • , 172,771 controls
]
 Mean = 56.81 years European — UKB —
PSS003606 — —
[
  • 4,659 cases
  • , 173,479 controls
]
 Mean = 56.81 years European — UKB —