Polygenic Score (PGS) ID: PGS002259

Predicted Trait
Reported Trait Stroke
Mapped Trait(s) stroke (EFO_0000712)
Released in PGS Catalog: Feb. 23, 2022
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 metaPRS_Stroke
Development Method
Name metaPRS (elasticnet)
Parameters Mix of 14 component PRS
Variants
Original Genome Build GRCh37
Number of Variants 534
Effect Weight Type MetaPRS Weight
PGS Source
PGS Catalog Publication (PGP) ID PGP000285
Citation (link to publication) Lu X et al. Neurology (2021)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 47%
Not Reported: 30.4%
East Asian: 14.6%
South Asian: 3%
Multi-ancestry (including European): 2.6%
  • European
  • Not Reported
African: 1.6%
Hispanic or Latin American: 0.3%
Additional Asian Ancestries: 0.2%
Multi-ancestry (excluding European): 0.2%
  • African
Greater Middle Eastern: 0.09%
2,442,550 individuals (100%)
Score Development/Training
East Asian: 100%
5,366 individuals (100%)
PGS Evaluation
East Asian: 100%
2 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST005838
Europe PMC: 29531354
 45,564 individuals East Asian NR
GWAS Catalog: GCST005838
Europe PMC: 29531354
 698 individuals Asian unspecified NR
GWAS Catalog: GCST005838
Europe PMC: 29531354
 1,557 individuals Hispanic or Latin American NR
GWAS Catalog: GCST001659
Europe PMC: 22941190
 2,406 individuals European NR
GWAS Catalog: GCST003258
Europe PMC: 26708676
 40,990 individuals European NR
GWAS Catalog: GCST003258
Europe PMC: 26708676
 2,521 individuals Hispanic or Latin American NR
GWAS Catalog: GCST003258
Europe PMC: 26708676
 4,963 individuals African American or Afro-Caribbean, African unspecified NR
Europe PMC: 25078452
[
  • 6,778 cases
  • , 12,095 controls
]
 European NR
Europe PMC: 27025970
[
  • 444 cases
  • , 1,727 controls
]
 East Asian NR
GWAS Catalog: GCST003491
Europe PMC: 27068588
 84,961 individuals European NR
GWAS Catalog: GCST003324
Europe PMC: 26732560
 17,716 individuals European NR
GWAS Catalog: GCST003324
Europe PMC: 26732560
 426 individuals African American or Afro-Caribbean NR
GWAS Catalog: GCST003324
Europe PMC: 26732560
 4,746 individuals South Asian NR
GWAS Catalog: GCST005838
Europe PMC: 29531354
 20,695 individuals African American or Afro-Caribbean 62 cohorts
  • 3C
  • ,ADHD
  • ,AGES
  • ,ASGC
  • ,BASICMAR
  • ,BBJ
  • ,BRAINS
  • ,CADISP
  • ,CHS
  • ,DNA_Lacunar
  • ,EPIC_CAD
  • ,FHS
  • ,FINRISK
  • ,Finland
  • ,GCNKSS
  • ,GEOS
  • ,GRAZ
  • ,Glasgow
  • ,HCHS
  • ,HISAYAMA
  • ,HPS
  • ,HRS
  • ,HVH
  • ,HealthABC
  • ,ICH
  • ,INMA
  • ,INTERSTROKE
  • ,ISGS
  • ,KORA
  • ,KRAKOW
  • ,LSGS
  • ,LSR
  • ,MCISS
  • ,MDC
  • ,MESA
  • ,MGH-GASROS
  • ,MIAMISR
  • ,MILANO
  • ,MONICA
  • ,NHS
  • ,NOMAS
  • ,OAI
  • ,PROSPER
  • ,RACE
  • ,REGARDS
  • ,RS
  • ,SAHLSIS
  • ,SDS
  • ,SHIP
  • ,SIFAP
  • ,SLESS
  • ,SOL
  • ,SPS3
  • ,SWISS
  • ,TwinGene
  • ,ULSAM
  • ,VISP
  • ,WGHS
  • ,WHI
  • ,WTCCC
  • ,WUSTL
  • ,deCODE
GWAS Catalog: GCST005838
Europe PMC: 29531354
 9,144 individuals South Asian 62 cohorts
  • 3C
  • ,ADHD
  • ,AGES
  • ,ASGC
  • ,BASICMAR
  • ,BBJ
  • ,BRAINS
  • ,CADISP
  • ,CHS
  • ,DNA_Lacunar
  • ,EPIC_CAD
  • ,FHS
  • ,FINRISK
  • ,Finland
  • ,GCNKSS
  • ,GEOS
  • ,GRAZ
  • ,Glasgow
  • ,HCHS
  • ,HISAYAMA
  • ,HPS
  • ,HRS
  • ,HVH
  • ,HealthABC
  • ,ICH
  • ,INMA
  • ,INTERSTROKE
  • ,ISGS
  • ,KORA
  • ,KRAKOW
  • ,LSGS
  • ,LSR
  • ,MCISS
  • ,MDC
  • ,MESA
  • ,MGH-GASROS
  • ,MIAMISR
  • ,MILANO
  • ,MONICA
  • ,NHS
  • ,NOMAS
  • ,OAI
  • ,PROSPER
  • ,RACE
  • ,REGARDS
  • ,RS
  • ,SAHLSIS
  • ,SDS
  • ,SHIP
  • ,SIFAP
  • ,SLESS
  • ,SOL
  • ,SPS3
  • ,SWISS
  • ,TwinGene
  • ,ULSAM
  • ,VISP
  • ,WGHS
  • ,WHI
  • ,WTCCC
  • ,WUSTL
  • ,deCODE
GWAS Catalog: GCST005838
Europe PMC: 29531354
 446,696 individuals European 62 cohorts
  • 3C
  • ,ADHD
  • ,AGES
  • ,ASGC
  • ,BASICMAR
  • ,BBJ
  • ,BRAINS
  • ,CADISP
  • ,CHS
  • ,DNA_Lacunar
  • ,EPIC_CAD
  • ,FHS
  • ,FINRISK
  • ,Finland
  • ,GCNKSS
  • ,GEOS
  • ,GRAZ
  • ,Glasgow
  • ,HCHS
  • ,HISAYAMA
  • ,HPS
  • ,HRS
  • ,HVH
  • ,HealthABC
  • ,ICH
  • ,INMA
  • ,INTERSTROKE
  • ,ISGS
  • ,KORA
  • ,KRAKOW
  • ,LSGS
  • ,LSR
  • ,MCISS
  • ,MDC
  • ,MESA
  • ,MGH-GASROS
  • ,MIAMISR
  • ,MILANO
  • ,MONICA
  • ,NHS
  • ,NOMAS
  • ,OAI
  • ,PROSPER
  • ,RACE
  • ,REGARDS
  • ,RS
  • ,SAHLSIS
  • ,SDS
  • ,SHIP
  • ,SIFAP
  • ,SLESS
  • ,SOL
  • ,SPS3
  • ,SWISS
  • ,TwinGene
  • ,ULSAM
  • ,VISP
  • ,WGHS
  • ,WHI
  • ,WTCCC
  • ,WUSTL
  • ,deCODE
GWAS Catalog: GCST002389
Europe PMC: 24656865
 3,026 individuals European NR
GWAS Catalog: GCST000239
Europe PMC: 18991354
 12,476 individuals European NR
GWAS Catalog: GCST000446
Europe PMC: 19597491
 36,137 individuals European NR
GWAS Catalog: GCST002987
Europe PMC: 26089329
 14,746 individuals African American or Afro-Caribbean NR
GWAS Catalog: GCST002627
Europe PMC: 25249183
 9,469 individuals East Asian NR
GWAS Catalog: GCST003276
Europe PMC: 26390057
 31,516 individuals East Asian NR
GWAS Catalog: GCST003276
Europe PMC: 26390057
 33,126 individuals South Asian NR
GWAS Catalog: GCST003276
Europe PMC: 26390057
 35,352 individuals European NR
GWAS Catalog: GCST001000
Europe PMC: 21378986
 460 individuals East Asian NR
Europe PMC: 28530674
[
  • 88,192 cases
  • , 162,544 controls
]
 Not reported NR
GWAS Catalog: GCST007990
Europe PMC: 28714974
 120,286 individuals European NR
GWAS Catalog: GCST005194
Europe PMC: 29212778
 296,525 individuals NR UKB
Europe PMC: 23202125
[
  • 63,746 cases
  • , 130,681 controls
]
 Not reported NR
Europe PMC: 28584231
 NR Not reported UKB
GWAS Catalog: GCST003400
Europe PMC: 26818947
 41,646 individuals East Asian NR
GWAS Catalog: GCST003335
Europe PMC: 26785701
 44,609 individuals East Asian NR
GWAS Catalog: GCST003214
Europe PMC: 26582766
 8,344 individuals East Asian NR
Europe PMC: 29083407
 47,532 individuals East Asian NR
GWAS Catalog: GCST004235
Europe PMC: 28334899
 187,365 individuals European NR
GWAS Catalog: GCST004235
Europe PMC: 28334899
 32,576 individuals East Asian NR
Europe PMC: 26733238
 NR Not reported NR
GWAS Catalog: GCST003116
Europe PMC: 26343387
 3,139 individuals African American or Afro-Caribbean 41 cohorts
  • ADVANCE
  • ,AGES
  • ,AIDHS
  • ,ARIC
  • ,BAS
  • ,BioMe
  • ,CARDIOGENICS
  • ,CAS
  • ,CCGB
  • ,COROGENE
  • ,DUKE_2
  • ,EGCUT
  • ,FGENTCARD
  • ,FHS
  • ,FINRISK
  • ,FamHS
  • ,GENRIC
  • ,GerMIFS
  • ,GoDARTS
  • ,HPS
  • ,HSDS
  • ,HSIEA
  • ,ITH
  • ,LIFE-HEART
  • ,LOLIPOP
  • ,LURIC
  • ,MAYO-VDB
  • ,MIGen
  • ,MedSTAR
  • ,OHGS
  • ,PIVUS
  • ,PROCARDIS
  • ,PROMIS
  • ,PROSPER
  • ,PennCATH
  • ,RS
  • ,SDS
  • ,TwinGene
  • ,ULSAM
  • ,WGHS
  • ,WTCCC
GWAS Catalog: GCST003116
Europe PMC: 26343387
 4,095 individuals Hispanic or Latin American 41 cohorts
  • ADVANCE
  • ,AGES
  • ,AIDHS
  • ,ARIC
  • ,BAS
  • ,BioMe
  • ,CARDIOGENICS
  • ,CAS
  • ,CCGB
  • ,COROGENE
  • ,DUKE_2
  • ,EGCUT
  • ,FGENTCARD
  • ,FHS
  • ,FINRISK
  • ,FamHS
  • ,GENRIC
  • ,GerMIFS
  • ,GoDARTS
  • ,HPS
  • ,HSDS
  • ,HSIEA
  • ,ITH
  • ,LIFE-HEART
  • ,LOLIPOP
  • ,LURIC
  • ,MAYO-VDB
  • ,MIGen
  • ,MedSTAR
  • ,OHGS
  • ,PIVUS
  • ,PROCARDIS
  • ,PROMIS
  • ,PROSPER
  • ,PennCATH
  • ,RS
  • ,SDS
  • ,TwinGene
  • ,ULSAM
  • ,WGHS
  • ,WTCCC
GWAS Catalog: GCST003116
Europe PMC: 26343387
 11,323 individuals East Asian 41 cohorts
  • ADVANCE
  • ,AGES
  • ,AIDHS
  • ,ARIC
  • ,BAS
  • ,BioMe
  • ,CARDIOGENICS
  • ,CAS
  • ,CCGB
  • ,COROGENE
  • ,DUKE_2
  • ,EGCUT
  • ,FGENTCARD
  • ,FHS
  • ,FINRISK
  • ,FamHS
  • ,GENRIC
  • ,GerMIFS
  • ,GoDARTS
  • ,HPS
  • ,HSDS
  • ,HSIEA
  • ,ITH
  • ,LIFE-HEART
  • ,LOLIPOP
  • ,LURIC
  • ,MAYO-VDB
  • ,MIGen
  • ,MedSTAR
  • ,OHGS
  • ,PIVUS
  • ,PROCARDIS
  • ,PROMIS
  • ,PROSPER
  • ,PennCATH
  • ,RS
  • ,SDS
  • ,TwinGene
  • ,ULSAM
  • ,WGHS
  • ,WTCCC
GWAS Catalog: GCST003116
Europe PMC: 26343387
 25,557 individuals South Asian 41 cohorts
  • ADVANCE
  • ,AGES
  • ,AIDHS
  • ,ARIC
  • ,BAS
  • ,BioMe
  • ,CARDIOGENICS
  • ,CAS
  • ,CCGB
  • ,COROGENE
  • ,DUKE_2
  • ,EGCUT
  • ,FGENTCARD
  • ,FHS
  • ,FINRISK
  • ,FamHS
  • ,GENRIC
  • ,GerMIFS
  • ,GoDARTS
  • ,HPS
  • ,HSDS
  • ,HSIEA
  • ,ITH
  • ,LIFE-HEART
  • ,LOLIPOP
  • ,LURIC
  • ,MAYO-VDB
  • ,MIGen
  • ,MedSTAR
  • ,OHGS
  • ,PIVUS
  • ,PROCARDIS
  • ,PROMIS
  • ,PROSPER
  • ,PennCATH
  • ,RS
  • ,SDS
  • ,TwinGene
  • ,ULSAM
  • ,WGHS
  • ,WTCCC
GWAS Catalog: GCST003116
Europe PMC: 26343387
 141,217 individuals European 41 cohorts
  • ADVANCE
  • ,AGES
  • ,AIDHS
  • ,ARIC
  • ,BAS
  • ,BioMe
  • ,CARDIOGENICS
  • ,CAS
  • ,CCGB
  • ,COROGENE
  • ,DUKE_2
  • ,EGCUT
  • ,FGENTCARD
  • ,FHS
  • ,FINRISK
  • ,FamHS
  • ,GENRIC
  • ,GerMIFS
  • ,GoDARTS
  • ,HPS
  • ,HSDS
  • ,HSIEA
  • ,ITH
  • ,LIFE-HEART
  • ,LOLIPOP
  • ,LURIC
  • ,MAYO-VDB
  • ,MIGen
  • ,MedSTAR
  • ,OHGS
  • ,PIVUS
  • ,PROCARDIS
  • ,PROMIS
  • ,PROSPER
  • ,PennCATH
  • ,RS
  • ,SDS
  • ,TwinGene
  • ,ULSAM
  • ,WGHS
  • ,WTCCC
GWAS Catalog: GCST002461
Europe PMC: 24861553
 82,438 individuals East Asian 21 cohorts
  • CAGE
  • ,CLHNS
  • ,CRC
  • ,DFTJ
  • ,FAMHES
  • ,GenSalt
  • ,HEXA
  • ,Health2
  • ,KARE
  • ,KCPS
  • ,MESA
  • ,NHAPC
  • ,RIKEN
  • ,Rural
  • ,SDCS
  • ,SGWAS
  • ,SIH
  • ,SIMES
  • ,SP2
  • ,TGWAS
  • ,TUDR
GWAS Catalog: GCST002461
Europe PMC: 24861553
 4,301 individuals South East Asian 21 cohorts
  • CAGE
  • ,CLHNS
  • ,CRC
  • ,DFTJ
  • ,FAMHES
  • ,GenSalt
  • ,HEXA
  • ,Health2
  • ,KARE
  • ,KCPS
  • ,MESA
  • ,NHAPC
  • ,RIKEN
  • ,Rural
  • ,SDCS
  • ,SGWAS
  • ,SIH
  • ,SIMES
  • ,SP2
  • ,TGWAS
  • ,TUDR
GWAS Catalog: GCST003116
Europe PMC: 26343387
 2,268 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) 40 cohorts
  • ADVANCE
  • ,AGES
  • ,AIDHS
  • ,ARIC
  • ,BAS
  • ,BioMe
  • ,CARDIOGENICS
  • ,CAS
  • ,CCGB
  • ,COROGENE
  • ,DUKE_2
  • ,EGCUT
  • ,FGENTCARD
  • ,FHS
  • ,FINRISK
  • ,FamHS
  • ,GENRIC
  • ,GerMIFS
  • ,GoDARTS
  • ,HPS
  • ,HSDS
  • ,HSIEA
  • ,ITH
  • ,LIFE-HEART
  • ,LOLIPOP
  • ,LURIC
  • ,MAYO-VDB
  • ,MIGen
  • ,MedSTAR
  • ,OHGS
  • ,PIVUS
  • ,PROCARDIS
  • ,PROMIS
  • ,PROSPER
  • ,PennCATH
  • ,RS
  • ,TwinGene
  • ,ULSAM
  • ,WGHS
  • ,WTCCC
GWAS Catalog: GCST004787
Europe PMC: 28714975
 63,731 individuals European, NR NR
Score Development/Training
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
—
[
  • 2,872 cases
  • , 2,494 controls
]
 East Asian NR Incident stroke as a confirmed diagnosis of first-ever fatal or nonfatal stroke event during follow-up (I60-I69) — — — —

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
PPM012867 PSS009585|
East Asian Ancestry|
41,006 individuals
 PGP000285 |
Lu X et al. Neurology (2021)
 Reported Trait: Incident stroke HR: 1.28 [1.21, 1.36] — Hazard Ratio (HR, highest vs lowest quintile): 1.99 [1.66, 2.38] Sex —
PPM012868 PSS009585|
East Asian Ancestry|
41,006 individuals
 PGP000285 |
Lu X et al. Neurology (2021)
 Reported Trait: Incident ischemic stroke HR: 1.29 [1.2, 1.39] — Hazard Ratio (HR, highest vs lowest quintile): 2.13 [1.69, 2.69] Sex —
PPM012869 PSS009585|
East Asian Ancestry|
41,006 individuals
 PGP000285 |
Lu X et al. Neurology (2021)
 Reported Trait: Incident hemorrhagic stroke HR: 1.3 [1.17, 1.45] — Hazard Ratio (HR, highest vs lowest quintile): 1.98 [1.41, 2.77] Sex —
PPM018556 PSS011021|
East Asian Ancestry|
41,006 individuals
 PGP000483 |
Cui Q et al. Sci China Life Sci (2023)
|Ext.		 Reported Trait: Incident stroke — — Hazard ratio (HR, high vs low tertile): 3.01 [2.03, 4.45] Sex, cohort Age as the underlying time scale
PPM018557 PSS011021|
East Asian Ancestry|
41,006 individuals
 PGP000483 |
Cui Q et al. Sci China Life Sci (2023)
|Ext.		 Reported Trait: Incident stroke with high clinical risk — — Hazard ratio (HR, high vs low tertile): 2.12 [1.38, 3.27] Sex, cohort Age as the underlying time scale

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
PSS009585 Incident stroke as a confirmed diagnosis of first-ever fatal or nonfatal stroke event during follow-up (I60-I69) — 41,006 individuals,
43.1 % Male samples
 Mean = 51.9 years East Asian — NR —
PSS011021 — Mean = 9.0 years 41,006 individuals,
43.1 % Male samples
 Mean = 51.9 years
Sd = 10.6 years		 East Asian
(Chinese)		 — InterASIA China MUCA 1998, CIMIC