Polygenic Score (PGS) ID: PGS003984

Predicted Trait
Reported Trait Stroke
Mapped Trait(s) stroke (EFO_0000712)
Released in PGS Catalog: Dec. 19, 2023
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Score Details

Score Construction
PGS Name dbslmm.auto.GCST005838.Stroke
Development Method
Name DBSLMM-auto
Parameters auto
Variants
Original Genome Build GRCh38
Number of Variants 1,121,845
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000517
Citation (link to publication) Monti R et al. Am J Hum Genet (2024)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 85.2%
East Asian: 8.7%
African: 3.9%
South Asian: 1.7%
Hispanic or Latin American: 0.3%
Additional Asian Ancestries: 0.1%
524,354 individuals (100%)
Score Development/Training
European: 100%
8,142 individuals (100%)
PGS Evaluation
European: 66.7%
South Asian: 33.3%
6 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
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Study Identifiers
Sample Numbers
Sample Ancestry
Cohort(s)
GWAS Catalog: GCST005838
Europe PMC: 29531354
446,696 individualsEuropeanNR
GWAS Catalog: GCST005838
Europe PMC: 29531354
45,564 individualsEast AsianNR
GWAS Catalog: GCST005838
Europe PMC: 29531354
9,144 individualsSouth AsianNR
GWAS Catalog: GCST005838
Europe PMC: 29531354
20,695 individualsAfrican American or Afro-CaribbeanNR
GWAS Catalog: GCST005838
Europe PMC: 29531354
698 individualsAsian unspecifiedNR
GWAS Catalog: GCST005838
Europe PMC: 29531354
1,557 individualsHispanic or Latin AmericanNR
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Score Development/Training
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Study Identifiers
Sample Numbers
Sample Ancestry
Cohort(s)
Phenotype Definitions & Methods
Age of Study Participants
Participant Follow-up Time
Additional Ancestry Description
Additional Sample/Cohort Information
8,142 individualsEuropeanUKB
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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.

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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
PPM019449PSS011223|
European Ancestry|
48,148 individuals
PGP000517 |
Monti R et al. Am J Hum Genet (2024)
Reported Trait: Stroke excluding subarachnoid hemorrhageOR: 1.12083 [1.08824491, 1.15438327]
β: 0.11407 [0.08456622, 0.14356623]
AUROC: 0.53316 [0.52473906, 0.54158598]: 0.00269 [0.00138125, 0.00425231]0beta = log(or)/sd_pgs
PPM019450PSS011234|
European Ancestry|
376,733 individuals
PGP000517 |
Monti R et al. Am J Hum Genet (2024)
Reported Trait: Stroke excluding subarachnoid hemorrhageOR: 1.15341 [1.13900681, 1.16800282]
β: 0.14273 [0.13015666, 0.1552953]
AUROC: 0.54057 [0.53695, 0.54418221]: 0.00422 [0.00347622, 0.00499623]0beta = log(or)/sd_pgs
PPM019451PSS011247|
South Asian Ancestry|
44,057 individuals
PGP000517 |
Monti R et al. Am J Hum Genet (2024)
Reported Trait: Stroke excluding subarachnoid hemorrhageOR: 1.09189 [0.99222365, 1.20156871]
β: 0.08791 [-0.0078067, 0.18362796]
AUROC: 0.52519 [0.49747233, 0.55290272]: 0.00119 [0.0, 0.00512013]0beta = log(or)/sd_pgs
PPM019452PSS011263|
European Ancestry|
66,865 individuals
PGP000517 |
Monti R et al. Am J Hum Genet (2024)
Reported Trait: Stroke excluding subarachnoid hemorrhageOR: 1.12141 [1.09009411, 1.15362816]
β: 0.11459 [0.08626403, 0.1429119]
AUROC: 0.53176 [0.52370534, 0.53981953]: 0.00271 [0.00155187, 0.00420533]0beta = log(or)/sd_pgs
PPM019453PSS011290|
South Asian Ancestry|
9,326 individuals
PGP000517 |
Monti R et al. Am J Hum Genet (2024)
Reported Trait: Stroke excluding subarachnoid hemorrhageOR: 1.18126 [1.0309514, 1.3534912]
β: 0.16658 [0.03048206, 0.30268733]
AUROC: 0.54628 [0.50596882, 0.58659045]: 0.00432 [0.0000589, 0.0151188]0beta = log(or)/sd_pgs
PPM019454PSS011276|
European Ancestry|
90,274 individuals
PGP000517 |
Monti R et al. Am J Hum Genet (2024)
Reported Trait: Stroke excluding subarachnoid hemorrhageOR: 1.20912 [1.15705376, 1.26353856]
β: 0.1899 [0.14587692, 0.23391617]
AUROC: 0.55395 [0.54139946, 0.56649182]: 0.00744 [0.00445914, 0.01137928]0beta = log(or)/sd_pgs
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Evaluated Samples

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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
PSS011223
[
  • 4,515 cases
  • , 43,633 controls
]
EuropeanEB
PSS011234I9_STR, ICD10: I61 | I63 | I64 (exclude I636), ICD9:431|4330A|4331A|4339A|4340A|4341A|4349A|436
[
  • 26,166 cases
  • , 350,567 controls
]
EuropeanFinnGen
PSS011247
[
  • 424 cases
  • , 43,633 controls
]
South AsianG&H
PSS011263
[
  • 5,204 cases
  • , 61,661 controls
]
EuropeanHUNT
PSS011276
[
  • 2,035 cases
  • , 88,239 controls
]
EuropeanUKB
PSS011290
[
  • 211 cases
  • , 9,115 controls
]
South AsianUKB
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