Trait: lymphocyte percentage of leukocytes

Experimental Factor Ontology (EFO) Information
Identifier EFO_0007993
Description A calculated measurement in which the number of lymphocytes in a specified sample of blood is divide... d by the total number of white blood cells in the sample, and the result presented as a ratio, fraction, quotient or percentage. Show more
Trait category
Hematological measurement
Synonyms 5 synonyms
  • blood lymphocyte count to total leukocyte count ratio
  • lymphocyte count as percentage of total white blood cells
  • lymphocyte count to total WBC count ratio
  • lymphocyte percentage
  • lymphocyte percentage of white cells
Mapped term CMO:0000371

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
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Polygenic Score ID & Name
PGS Publication ID (PGP)
Reported Trait
Mapped Trait(s) (Ontology)
Number of Variants
Ancestry distribution
GWAS
Dev
Eval
Scoring File (FTP Link)
PGS000098
(lymph_p)
PGP000051 |
Xu Y et al. Cell Genom (2022)
Lymphocyte percentage of white cellslymphocyte percentage of leukocytes22,363
G
D
E
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000098/ScoringFiles/PGS000098.txt.gz
PGS000173
(lymph_p)
PGP000078 |
Vuckovic D et al. Cell (2020)
Lymphocyte percentage of white cellslymphocyte percentage of leukocytes472
G
-
E
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000173/ScoringFiles/PGS000173.txt.gz
PGS001414
(GBE_INI30180)
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Lymphocyte %lymphocyte percentage of leukocytes15,143
-
D
E
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001414/ScoringFiles/PGS001414.txt.gz
PGS001986
(portability-PLR_lymphocyte_perc)
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Lymphocyte percentagelymphocyte percentage of leukocytes66,778
-
D
E
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001986/ScoringFiles/PGS001986.txt.gz
PGS002203
(portability-ldpred2_lymphocyte_perc)
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Lymphocyte percentagelymphocyte percentage of leukocytes775,312
-
D
E
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002203/ScoringFiles/PGS002203.txt.gz
PGS003557
(cont-decay-lymphocyte_perc)
PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre
Lymphocyte percentagelymphocyte percentage of leukocytes979,739
-
D
E
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003557/ScoringFiles/PGS003557.txt.gz
PGS003941
(INI30180)
PGP000502 |
Tanigawa Y et al. AJHG (2023)
Lymphocyte percentagelymphocyte percentage of leukocytes20,804
-
D
E
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003941/ScoringFiles/PGS003941.txt.gz
PGS004359
(X30180.score)
PGP000561 |
Jung H et al. Commun Biol (2024)
Lymphocyte percentagelymphocyte percentage of leukocytes1,059,939
-
D
E
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS004359/ScoringFiles/PGS004359.txt.gz
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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.

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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
PPM000228PGS000098
(lymph_p)
PSS000163|
European Ancestry|
81,464 individuals
PGP000051 |
Xu Y et al. Cell Genom (2022)
Reported Trait: Lymphocyte percentage of white cellsPearson correlation coefficent (r): 0.33396age, sex, 10 PCs of ancestry, lifestyle factors (diet, smoking, alcohol consumption), technical cova... riates (the time between venepuncture and full blood cell analysis, seasonal effects, centre of sample collection, time dependent drift of equipment, systematic differences in equipment)Show moreUKB Testing Set - these samples were held out from Score Development (regression training) but overl... ap with the samples used for variant selection (GWAS)Show more
PPM000229PGS000098
(lymph_p)
PSS000137|
European Ancestry|
39,178 individuals
PGP000051 |
Xu Y et al. Cell Genom (2022)
Reported Trait: Lymphocyte percentage of white cellsPearson correlation coefficent (r): 0.3313age, sex, 10 PCs of ancestry, lifestyle factors (diet, smoking, alcohol consumption), technical cova... riates (the time between venepuncture and full blood cell analysis, seasonal effects, centre of sample collection, time dependent drift of equipment, systematic differences in equipment)Show more
PPM000529PGS000173
(lymph_p)
PSS000291|
European Ancestry|
39,260 individuals
PGP000078 |
Vuckovic D et al. Cell (2020)
Reported Trait: Lymphocyte percentage of white cells: 0.06965sex, age, 10 genetic PCs
PPM007050PGS001414
(GBE_INI30180)
PSS006991|
African Ancestry|
6,120 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Lymphocyte %: 0.03982 [0.03051, 0.04913]
Incremental R2 (full-covars): 0.01769
PGS R2 (no covariates): 0.02018 [0.01341, 0.02694]
age, sex, UKB array type, Genotype PCs
PPM007051PGS001414
(GBE_INI30180)
PSS006992|
East Asian Ancestry|
1,654 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Lymphocyte %: 0.08102 [0.05624, 0.10581]
Incremental R2 (full-covars): 0.04011
PGS R2 (no covariates): 0.03886 [0.02091, 0.05682]
age, sex, UKB array type, Genotype PCs
PPM007052PGS001414
(GBE_INI30180)
PSS006993|
European Ancestry|
24,130 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Lymphocyte %: 0.09934 [0.09229, 0.10639]
Incremental R2 (full-covars): 0.08221
PGS R2 (no covariates): 0.084 [0.0774, 0.09059]
age, sex, UKB array type, Genotype PCs
PPM007053PGS001414
(GBE_INI30180)
PSS006994|
South Asian Ancestry|
7,491 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Lymphocyte %: 0.05905 [0.04893, 0.06918]
Incremental R2 (full-covars): 0.05259
PGS R2 (no covariates): 0.05171 [0.04216, 0.06126]
age, sex, UKB array type, Genotype PCs
PPM007054PGS001414
(GBE_INI30180)
PSS006995|
European Ancestry|
65,520 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Lymphocyte %: 0.10838 [0.10395, 0.11281]
Incremental R2 (full-covars): 0.08842
PGS R2 (no covariates): 0.08835 [0.08426, 0.09245]
age, sex, UKB array type, Genotype PCs
PPM010763PGS001986
(portability-PLR_lymphocyte_perc)
PSS009473|
European Ancestry|
19,383 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Lymphocyte percentagePartial Correlation (partial-r): 0.314 [0.3012, 0.3266]sex, age, birth date, deprivation index, 16 PCs
PPM010764PGS001986
(portability-PLR_lymphocyte_perc)
PSS009247|
European Ancestry|
3,992 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Lymphocyte percentagePartial Correlation (partial-r): 0.2972 [0.2686, 0.3253]sex, age, birth date, deprivation index, 16 PCs
PPM010765PGS001986
(portability-PLR_lymphocyte_perc)
PSS008801|
European Ancestry|
6,417 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Lymphocyte percentagePartial Correlation (partial-r): 0.3022 [0.2798, 0.3243]sex, age, birth date, deprivation index, 16 PCs
PPM010766PGS001986
(portability-PLR_lymphocyte_perc)
PSS008575|
Greater Middle Eastern Ancestry|
1,150 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Lymphocyte percentagePartial Correlation (partial-r): 0.2825 [0.228, 0.3353]sex, age, birth date, deprivation index, 16 PCs
PPM010767PGS001986
(portability-PLR_lymphocyte_perc)
PSS008353|
South Asian Ancestry|
6,056 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Lymphocyte percentagePartial Correlation (partial-r): 0.2722 [0.2487, 0.2954]sex, age, birth date, deprivation index, 16 PCs
PPM010768PGS001986
(portability-PLR_lymphocyte_perc)
PSS008130|
East Asian Ancestry|
1,761 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Lymphocyte percentagePartial Correlation (partial-r): 0.2475 [0.2028, 0.291]sex, age, birth date, deprivation index, 16 PCs
PPM010769PGS001986
(portability-PLR_lymphocyte_perc)
PSS007917|
African Ancestry|
2,337 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Lymphocyte percentagePartial Correlation (partial-r): 0.1708 [0.131, 0.21]sex, age, birth date, deprivation index, 16 PCs
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Evaluated Samples

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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
PSS00013739,178 individuals,
50.0 % Male samples
Mean = 43.82 years
Range = [18.0, 76.4] years
EuropeanINTERVAL
PSS00016381,464 individuals,
46.0 % Male samples
Mean = 57.22 years
Range = [40.17, 71.1] years
EuropeanUKB
PSS00029139,260 individualsEuropeanINTERVAL
PSS0069916,120 individualsAfrican unspecifiedUKB
PSS0069921,654 individualsEast AsianUKB
PSS00699324,130 individualsEuropeannon-white British ancestryUKB
PSS0069947,491 individualsSouth AsianUKB
PSS00699565,520 individualsEuropeanwhite British ancestryUKBTesting cohort (heldout set)
PSS0079172,337 individualsAfrican American or Afro-CaribbeanCarribeanUKB
PSS0081301,761 individualsEast AsianChina (East Asia)UKB
PSS0083536,056 individualsSouth AsianIndia (South Asia)UKB
PSS0085751,150 individualsGreater Middle Eastern (Middle Eastern, North African or Persian)Iran (Middle East)UKB
PSS0088016,417 individualsEuropeanItaly (South Europe)UKB
PSS0090213,695 individualsAfrican unspecifiedNigeria (West Africa)UKB
PSS0092473,992 individualsEuropeanPoland (NE Europe)UKB
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