PGS Publication: PGP000026

Publication Information (EuropePMC)
Title Genetic risk, incident stroke, and the benefits of adhering to a healthy lifestyle: cohort study of 306 473 UK Biobank participants.
PubMed ID 30355576(Europe PMC)
doi 10.1136/bmj.k4168
Publication Date Oct. 24, 2018
Journal BMJ
Author(s) Rutten-Jacobs LC, Larsson SC, Malik R, Rannikmäe K, MEGASTROKE consortium, International Stroke Genetics Consortium, Sudlow CL, Dichgans M, Markus HS, Traylor 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)
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
PPM000090 PGS000038 (PRS90) PSS000057 PGP000026
Rutten-Jacobs LC et al. (2018)
Reported Trait: Incident stroke [top 33%] vs. Low[bottom 33%] of genetic risk)" class="pgs_helptip">HR (High[top 33%] vs. Low[bottom 33%] of genetic risk): 1.35[1.21, 1.5] age, sex, 10 PCs of genetic ancestry, genotyping batch The best performing PRS (e.g. C+T thresholds) were selected based on this sample set, as well as being used for the evaluation.

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
PSS000057 Incident stroke in was defined based on the UK Biobank (UKB) algorithm, based on medical history and linkage to data on hospital admissions and mortality. The authors also subtyped ischaemic stroke, intracerebral haemorrhage, or subarachnoid haemorrhage. UKB Participants with genetic data were excluded from the analysis based on the following criteria: failing genetic quality control (missingness > 5%, sex mismatch, excessive heterozygosity), having a history of stroke or myocardial infarction (MI), self-report of stroke or MI, missing lifestyle information. Median = 7.1 years
[
  • 2,077 cases
  • , 304,396 controls
]
,
44.59 % Male samples
Mean = 56.7 years
Sd = 7.9 years
European Unrelated White British subset of UKB participants UKB