PGS Publication: PGP000027

Publication Information (EuropePMC)
Title Genomic risk score offers predictive performance comparable to clinical risk factors for ischaemic stroke.
PubMed ID 31862893(Europe PMC)
doi 10.1038/s41467-019-13848-1
Publication Date Dec. 20, 2019
Journal Nat Commun
Author(s) Abraham G, Malik R, Yonova-Doing E, Salim A, Wang T, Danesh J, Butterworth AS, Howson JMM, Inouye M, Dichgans M.
Released in PGS: Dec. 18, 2019

Associated Polygenic Score(s)

PGS Developed By This Publication

Polygenic Score (PGS) ID PGS Name PGS Publication (PGP) ID Reported Trait Mapped Trait(s) (Ontology) Number of Variants PGS Scoring File (FTP Link)
PGS000039 metaGRS_ischaemicstroke PGP000027
Abraham G et al. Nat Commun (2019)
Ischaemic stroke Ischemic stroke
stroke
3,225,583 http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000039/ScoringFiles/PGS000039.txt.gz

External PGS Evaluated By This Publication

Polygenic Score (PGS) ID PGS Name PGS Publication (PGP) ID Reported Trait Mapped Trait(s) (Ontology) Number of Variants PGS Scoring File (FTP Link)
PGS000038 PRS90 PGP000026
Rutten-Jacobs LC et al. BMJ (2018)
Stroke stroke 90 http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000038/ScoringFiles/PGS000038.txt.gz

PGS 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 ID)
Evaluated Score PGS Sample Set ID
(PSS ID)
Performance Source Trait PGS Effect Sizes
(per SD change)
PGS Classification Metrics Other Metrics Covariates Included in the Model PGS Performance: Other Relevant Information
PPM000091 PGS000039 (metaGRS_ischaemicstroke) PSS000058 PGP000027
Abraham G et al. (2019)
Reported Trait: Ischaemic stroke before age 75 HR: 1.26[1.22, 1.31] C-index: 0.585[0.574, 0.595] Sex, genotyping chip, 10 PCs
PPM000092 PGS000038 (PRS90) PSS000058 PGP000027
Abraham G et al. (2019)
Ext.
Reported Trait: Ischaemic stroke before age 75 HR: 1.13[1.1, 1.17] Sex, genotyping chip, 10 PCs

Evaluated Samples

PGS Sample Set ID
(PSS ID)
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
PSS000058 Prevalent and incident Ischaemic stroke; defined in http://biobank.ndph.ox.ac.uk/showcase/docs/alg_outcome_stroke.pdf Mean = 6.3 years
Sd = 1.9 years
[
  • 3,075 cases
  • , 392,318 controls
]
,
45.7 % Male samples
Mean = 54.3 years European UKB Validation set