Trait: basophil percentage of leukocytes

Experimental Factor Ontology (EFO) Information
Identifier EFO_0007992
Description
  • A calculated measurement in which the number of basophil granulocytes is divided by the number of all white blood cells in a specified sample of peripheral venous blood, and the result presented as a ratio, fraction, quotient or percentage. A basophil is a granular leukocyte with an irregularly shaped, relatively pale-staining nucleus that is partially constricted into two lobes, and with cytoplasm containing coarse granules of variable size that stain bluish-black when exposed to basic dyes.
Trait category
Hematological measurement
Synonyms 5 synonyms
  • basophil percentage of white cells
  • basophil count as percentage of total white blood cells
  • basophil count to total WBC count ratio
  • blood basophil count to total leukocyte count ratio
  • basophil percentage
Mapped term(s) CMO:0000368

Associated Polygenic Score(s)

Polygenic Score (PGS) ID PGS Name PGS Publication (PGP) ID Reported Trait Number of Variants PGS Scoring File (FTP Link)
PGS000089 baso_p PGP000051
Xu Y et al. bioRxiv (2020)
Pre
Basophil percentage of white cells 160 http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000089/ScoringFiles/PGS000089.txt.gz
PGS000164 baso_p PGP000078
Vuckovic D et al. medRxiv (2020)
Pre
Basophil percentage of white cells 150 http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000164/ScoringFiles/PGS000164.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
PPM000210 PGS000089 (baso_p) PSS000154 PGP000051
Xu Y et al. (2020)
Pre
Reported Trait: Basophil percentage of white cells Pearson correlation coefficent (r): 0.1911 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)
PPM000211 PGS000089 (baso_p) PSS000128 PGP000051
Xu Y et al. (2020)
Pre
Reported Trait: Basophil percentage of white cells Pearson correlation coefficent (r): 0.1632 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)
PPM000520 PGS000164 (baso_p) PSS000291 PGP000078
Vuckovic D et al. (2020)
Pre
Reported Trait: Basophil percentage of white cells : 0.0254422491452189 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
PSS000128 40,133 individuals,
50.0 % Male samples
Mean = 43.92 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000154 80,906 individuals,
46.0 % Male samples
Mean = 57.2 years
Range = [40.18, 72.91] years
European UKB
PSS000291 39,260 individuals European INTERVAL