PGS Catalog - PGS004597 / Ischemic stroke (Polygenic Score)

Polygenic Score (PGS) ID: PGS004597

Predicted Trait
Reported Trait	Ischemic stroke
Mapped Trait(s)	Ischemic stroke (HP_0002140)

Released in PGS Catalog: Jan. 26, 2024

Download Score FTP directory

Terms and Licenses

PGS obtained from the Catalog should be cited appropriately, and used in accordance with any licensing restrictions set by the authors. See EBI Terms of Use (https://www.ebi.ac.uk/about/terms-of-use/) for additional details.

Score Details

Score Construction
PGS Name	PRS32_IS
Development Method
Name	Genome-wide significant SNPs
Parameters	NR
Variants
Original Genome Build	NR
Number of Variants	32
Effect Weight Type	beta

PGS Source
PGS Catalog Publication (PGP) ID	PGP000576
Citation (link to publication)	Peng H et al. Nutrients (2023)

Ancestry Distribution
Source of Variant Associations (GWAS)	European: 85.1% East Asian: 8.8% African: 4% South Asian: 1.8% Hispanic or Latin American: 0.2% Additional Asian Ancestries: 0.1% 517,525 individuals (100%)
PGS Evaluation	Multi-ancestry (including European): 100% European Not Reported 1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)

Study Identifiers	Sample Numbers	Sample Ancestry	Cohort(s)
GWAS Catalog: GCST005843 Europe PMC: 29531354	440,328 individuals	European	NR
GWAS Catalog: GCST005843 Europe PMC: 29531354	45,564 individuals	East Asian	NR
GWAS Catalog: GCST005843 Europe PMC: 29531354	9,144 individuals	South Asian	NR
GWAS Catalog: GCST005843 Europe PMC: 29531354	20,687 individuals	African American or Afro-Caribbean	NR
GWAS Catalog: GCST005843 Europe PMC: 29531354	555 individuals	Asian unspecified	NR
GWAS Catalog: GCST005843 Europe PMC: 29531354	1,247 individuals	Hispanic or Latin American	NR

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
PPM020749	PSS011390\| Multi-ancestry (including European)\| 13,348 individuals	PGP000576 \| Peng H et al. Nutrients (2023)	Reported Trait: Incident ischaemic stroke in breast cancer survivors	—	—	Hazard ratio (HR, top 50% vs bottom 50% of PRS): 1.25 [0.91, 1.72]	Age at diagnosis of breast cancer, race, Townsend Deprivation Index, diabetes, hypertension, antihypertensive medications, insulin treatment, lipid treatments, hormone replacement therapy, menopause, surgical treatment of breast cancer, genetic testing batches, 10 PCs	—
PPM020752	PSS011390\| Multi-ancestry (including European)\| 13,348 individuals	PGP000576 \| Peng H et al. Nutrients (2023)	Reported Trait: Incident ischaemic stroke in breast cancer survivors with lifestyle	—	—	Hazard ratio (HR, unhealthy lifestyle and PRS in top 50% vs healthy lifestyle and PRS in bottom 50%): 0.37 [0.15, 0.93]	Age at diagnosis of breast cancer, race, Townsend Deprivation Index, diabetes, hypertension, antihypertensive medications, insulin treatment, lipid treatments, hormone replacement therapy, menopause, surgical treatment of breast cancer, genetic testing batches, 10 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
PSS011390	CVD ICD-10: I20-I25, I60-I64, G45	—	12,780 individuals, 0.0 % Male samples	—	European	—	UKB	Mean age of full combined ancestry cohort = 58.8 years (sd = 7.1)
PSS011390	CVD ICD-10: I20-I25, I60-I64, G45	—	568 individuals, 0.0 % Male samples	—	Not reported	—	UKB	Mean age of full combined ancestry cohort = 58.8 years (sd = 7.1)