PGS Publication: PGP000839

Publication Information (EuropePMC)
Title Evaluation of functional annotation-informed and ancestry-specific polygenic risk scores for ischemic stroke.
PubMed ID 42787420(Europe PMC)
doi 10.3389/fbinf.2026.1875388
Publication Date Sept. 10, 2026
Journal Front Bioinform
Author(s) Armstrong ND, Srinivasasainagendra V, Patki A, Pilla L, Aldridge C, Jones AC, Broeckel U, Lange EM, Lange LA, Arora P, Limdi NA, Iwaki H, Sargent L, Kim J, Ng MCY, Mercader JM, Keene KL, Worrall BB, Tiwari HK, Irvin MR.
Released in PGS Catalog: Oct. 23, 2026

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)
PGS019947
(IS_PRSCS_HM3_AFR)
 PGP000839 |
Armstrong ND et al. Front Bioinform (2026)
 Ischemic stroke Ischemic stroke 983,900
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019947/ScoringFiles/PGS019947.txt.gz
PGS019948
(IS_PRSCS_TagIt_AFR)
 PGP000839 |
Armstrong ND et al. Front Bioinform (2026)
 Ischemic stroke Ischemic stroke 1,368,789
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019948/ScoringFiles/PGS019948.txt.gz
PGS019949
(IS_PRSCS_SBayesRC_AFR)
 PGP000839 |
Armstrong ND et al. Front Bioinform (2026)
 Ischemic stroke Ischemic stroke 6,064,174
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019949/ScoringFiles/PGS019949.txt.gz
PGS019950
(IS_PRSCS_HM3_EUR)
 PGP000839 |
Armstrong ND et al. Front Bioinform (2026)
 Ischemic stroke Ischemic stroke 1,093,847
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019950/ScoringFiles/PGS019950.txt.gz
PGS019951
(IS_PRSCS_TagIt_EUR)
 PGP000839 |
Armstrong ND et al. Front Bioinform (2026)
 Ischemic stroke Ischemic stroke 1,368,236
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019951/ScoringFiles/PGS019951.txt.gz
PGS019952
(IS_PRSCS_SBayesRC_EUR)
 PGP000839 |
Armstrong ND et al. Front Bioinform (2026)
 Ischemic stroke Ischemic stroke 7,356,518
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019952/ScoringFiles/PGS019952.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
PPM038126 PGS019948
(IS_PRSCS_TagIt_AFR)
 PSS013828|
African Ancestry|
29,594 individuals
 PGP000839 |
Armstrong ND et al. Front Bioinform (2026)
 Reported Trait: ischemic stroke OR: 1.026 [0.978, 1.076] AUROC: 0.66646 — age, sex, PC 1-10 —
PPM038125 PGS019947
(IS_PRSCS_HM3_AFR)
 PSS013828|
African Ancestry|
29,594 individuals
 PGP000839 |
Armstrong ND et al. Front Bioinform (2026)
 Reported Trait: ischemic stroke OR: 1.04 [0.988, 1.095] AUROC: 0.66597 — age, sex, PC 1-10 —
PPM038127 PGS019949
(IS_PRSCS_SBayesRC_AFR)
 PSS013828|
African Ancestry|
29,594 individuals
 PGP000839 |
Armstrong ND et al. Front Bioinform (2026)
 Reported Trait: ischemic stroke OR: 0.993 [0.943, 1.046] AUROC: 0.66677 — age, sex, PC 1-10 —
PPM038128 PGS019950
(IS_PRSCS_HM3_EUR)
 PSS013829|
European Ancestry|
78,155 individuals
 PGP000839 |
Armstrong ND et al. Front Bioinform (2026)
 Reported Trait: ischemic stroke OR: 1.105 [1.073, 1.138] AUROC: 0.66326 — age, sex, PC 1-10 —
PPM038129 PGS019951
(IS_PRSCS_TagIt_EUR)
 PSS013829|
European Ancestry|
78,155 individuals
 PGP000839 |
Armstrong ND et al. Front Bioinform (2026)
 Reported Trait: ischemic stroke OR: 1.097 [1.064, 1.13] AUROC: 0.66297 — age, sex, PC 1-10 —
PPM038130 PGS019952
(IS_PRSCS_SBayesRC_EUR)
 PSS013829|
European Ancestry|
78,155 individuals
 PGP000839 |
Armstrong ND et al. Front Bioinform (2026)
 Reported Trait: ischemic stroke OR: 1.156 [1.123, 1.191] AUROC: 0.66561 — age, sex, PC 1-10 —
PPM038131 PGS019947
(IS_PRSCS_HM3_AFR)
 PSS013830|
African Ancestry|
6,908 individuals
 PGP000839 |
Armstrong ND et al. Front Bioinform (2026)
 Reported Trait: Stroke OR: 1.114 [0.978, 1.268] AUROC: 0.6439 [0.6159, 0.6719] — age, sex, PC 1-10, trial antihypertensive group —
PPM038132 PGS019948
(IS_PRSCS_TagIt_AFR)
 PSS013830|
African Ancestry|
6,908 individuals
 PGP000839 |
Armstrong ND et al. Front Bioinform (2026)
 Reported Trait: Stroke OR: 1.141 [1.033, 1.261] AUROC: 0.6458 [0.6178, 0.6738] — age, sex, PC 1-10, trial antihypertensive group —
PPM038133 PGS019949
(IS_PRSCS_SBayesRC_AFR)
 PSS013830|
African Ancestry|
6,908 individuals
 PGP000839 |
Armstrong ND et al. Front Bioinform (2026)
 Reported Trait: Stroke OR: 1.009 [0.891, 1.143] AUROC: 0.6416 [0.6135, 0.6696] — age, sex, PC 1-10, trial antihypertensive group —
PPM038134 PGS019950
(IS_PRSCS_HM3_EUR)
 PSS013831|
European Ancestry|
11,255 individuals
 PGP000839 |
Armstrong ND et al. Front Bioinform (2026)
 Reported Trait: ischemic stroke OR: 1.086 [0.984, 1.197] AUROC: 0.626 [0.6005, 0.6516] — age, sex, PC 1-10 —
PPM038135 PGS019951
(IS_PRSCS_TagIt_EUR)
 PSS013831|
European Ancestry|
11,255 individuals
 PGP000839 |
Armstrong ND et al. Front Bioinform (2026)
 Reported Trait: ischemic stroke OR: 1.105 [1.001, 1.22] AUROC: 0.6266 [0.6011, 0.6521] — age, sex, PC 1-10 —
PPM038136 PGS019952
(IS_PRSCS_SBayesRC_EUR)
 PSS013831|
European Ancestry|
11,255 individuals
 PGP000839 |
Armstrong ND et al. Front Bioinform (2026)
 Reported Trait: ischemic stroke OR: 1.236 [1.122, 1.362] AUROC: 0.6375 [0.6118, 0.6632] — age, sex, PC 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
PSS013828 — —
[
  • 311 cases
  • , 29,283 controls
]
,
46.1 % Male samples
 Mean = 63.3 years
Sd = 8.1 years		 African American or Afro-Caribbean — AllofUs To harmonize phenotype definitions with REGARDS, analyses in All of Us were restricted to participants aged ≥45 years. IS cases were defined as individuals with an inpatient encounter associated with ICD-9 codes 433.x1 or 434.x1, or ICD-10 codes I63.xx. Stroke codes identified only in non-inpatient encounters, SNOMED stroke codes, and hemorrhagic stroke codes (ICD-9 430.x, 431.x; ICD-10 I60.x, I61.x) were excluded from both case and control sets.
PSS013829 — —
[
  • 898 cases
  • , 77,257 controls
]
,
41.8 % Male samples
 Mean = 68.8 years
Sd = 10.0 years		 European — AllofUs To harmonize phenotype definitions with REGARDS, analyses in All of Us were restricted to participants aged ≥45 years. IS cases were defined as individuals with an inpatient encounter associated with ICD-9 codes 433.x1 or 434.x1, or ICD-10 codes I63.xx. Stroke codes identified only in non-inpatient encounters, SNOMED stroke codes, and hemorrhagic stroke codes (ICD-9 430.x, 431.x; ICD-10 I60.x, I61.x) were excluded from both case and control sets.
PSS013830 — —
[
  • 366 cases
  • , 6,542 controls
]
,
44.6 % Male samples
 Mean = 66.2 years
Sd = 7.8 years		 African American or Afro-Caribbean — GenHAT Incident stroke in GenHAT was defined as a persistent neurological deficit resulting from arterial occlusion or rupture, lasting >24 hours (unless fatal), or with CT/MRI evidence consistent with acute stroke, excluding stroke due to trauma, infection, tumor, or other non-ischemic causes. Events occurring perioperatively were included. In the primary ALLHAT study, the type of stroke (specifically differentiating between ischemic and hemorrhagic) was not systematically classified or reported as part of the trial's pre-specific secondary outcomes; therefore, stroke was analyzed as an all-stroke phenotype in this cohort.
PSS013831 — —
[
  • 439 cases
  • , 10,816 controls
]
,
48.4 % Male samples
 Mean = 64.0 years
Sd = 9.1 years		 European — REGARDS ischemic stroke - ischemic stroke events in REGARDS were identified through biannual surveillance and adjudicated via medical record review. For participants aligned to Medicare claims, additional ischemic stroke events were identified from inpatient claims using ICD-9 codes 433.x1 or 434.x1 or ICD-10 codes I63.xx in the primary diagnosis position. Hospitalizations occurring within one day of each other were merged into a single episode of care. Participants with self-reported stroke at baseline were excluded.