Trait: platelet count

Experimental Factor Ontology (EFO) Information
Identifier EFO_0004309
Description
  • The number of PLATELETS per unit volume in a sample of venous BLOOD.
Trait category
Hematological measurement
Synonyms blood platelet number
Mapped term(s) 3 mapped terms
  • NCIt:C51951
  • SNOMEDCT:61928009
  • MSH:D010976

Associated Polygenic Score(s)

Polygenic Score (PGS) ID PGS Name PGS Publication (PGP) ID Reported Trait Number of Variants PGS Scoring File (FTP Link)
PGS000109 plt PGP000051
Xu Y et al. bioRxiv (2020)
Pre
Platelet count 762 http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000109/ScoringFiles/PGS000109.txt.gz
PGS000186 plt PGP000078
Vuckovic D et al. medRxiv (2020)
Pre
Platelet count 739 http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000186/ScoringFiles/PGS000186.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
PPM000250 PGS000109 (plt) PSS000174 PGP000051
Xu Y et al. (2020)
Pre
Reported Trait: Platelet count Pearson correlation coefficent (r): 0.4843 age, sex, 10 PCs of ancestry, lifestyle factors (diet, smoking, alcohol consumption), technical covariates (the time between venepuncture and full blood cell analysis, seasonal effects, centre of sample collection, time dependent drift of equipment, systematic differences in equipment) UKB Testing Set - these samples were held out from Score Development (regression training) but overlap with the samples used for variant selection (GWAS)
PPM000251 PGS000109 (plt) PSS000148 PGP000051
Xu Y et al. (2020)
Pre
Reported Trait: Platelet count Pearson correlation coefficent (r): 0.4797 age, sex, 10 PCs of ancestry, lifestyle factors (diet, smoking, alcohol consumption), technical covariates (the time between venepuncture and full blood cell analysis, seasonal effects, centre of sample collection, time dependent drift of equipment, systematic differences in equipment)
PPM000557 PGS000186 (plt) PSS000290 PGP000078
Vuckovic D et al. (2020)
Pre
Reported Trait: Platelet count : 0.16048845222201 sex, age, 10 genetic PCs
PPM000540 PGS000186 (plt) PSS000291 PGP000078
Vuckovic D et al. (2020)
Pre
Reported Trait: Platelet count : 0.191945878303405 sex, age, 10 genetic PCs

Evaluated Samples

PGS Sample Set ID
(PSS ID)
Detailed Phenotype Description Participant Follow-up Time Sample Numbers Age of Study Participants Sample Ancestry Additional Ancestry Description Cohort(s) Additional Sample/Cohort Information
PSS000148 38,939 individuals,
49.0 % Male samples
Mean = 43.75 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000174 78,246 individuals,
46.0 % Male samples
Mean = 57.23 years
Range = [39.98, 70.43] years
European UKB
PSS000290 2,314 individuals European
(French Canadian)
CARTaGENE
PSS000291 39,260 individuals European INTERVAL