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
Inflammatory measurement
Synonyms 5 synonyms
  • basophil count as percentage of total white blood cells
  • basophil count to total WBC count ratio
  • basophil percentage
  • basophil percentage of white cells
  • blood basophil count to total leukocyte count ratio
Mapped term(s) CMO:0000368

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
Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution Scoring File (FTP Link)
PGS000089
(baso_p)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Basophil percentage of white cells basophil percentage of leukocytes 160
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000089/ScoringFiles/PGS000089.txt.gz
PGS000164
(baso_p)
PGP000078 |
Vuckovic D et al. Cell (2020)
Basophil percentage of white cells basophil percentage of leukocytes 150
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000164/ScoringFiles/PGS000164.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
PPM000210 PGS000089
(baso_p)
PSS000154|
European Ancestry|
80,906 individuals
PGP000051 |
Xu Y et al. bioRxiv (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|
European Ancestry|
40,133 individuals
PGP000051 |
Xu Y et al. bioRxiv (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|
European Ancestry|
39,260 individuals
PGP000078 |
Vuckovic D et al. Cell (2020)
Reported Trait: Basophil percentage of white cells : 0.02544 sex, age, 10 genetic PCs

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
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