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
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Synonyms |
5 synonyms
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Mapped term | CMO:0000371 |
Polygenic Score ID & Name
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PGS Publication ID (PGP)
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Reported Trait
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Mapped Trait(s) (Ontology)
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Number of Variants
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Ancestry distribution GWAS Dev Eval |
Scoring File (FTP Link)
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PGS000098 (lymph_p) | PGP000051 | Xu Y et al. Cell Genom (2022) | Lymphocyte percentage of white cells | lymphocyte percentage of leukocytes | 22,363 | 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 cells | lymphocyte percentage of leukocytes | 472 | - | 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 leukocytes | 15,143 | - | 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 percentage | lymphocyte percentage of leukocytes | 66,778 | - | 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 percentage | lymphocyte percentage of leukocytes | 775,312 | - | 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 percentage | lymphocyte percentage of leukocytes | 979,739 | - | 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 percentage | lymphocyte percentage of leukocytes | 20,804 | - | 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 percentage | lymphocyte percentage of leukocytes | 1,059,939 | - | https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS004359/ScoringFiles/PGS004359.txt.gz |
PGS Performance Metric ID (PPM) |
Evaluated Score
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PGS Sample Set ID (PSS) |
Performance Source
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Trait
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PGS Effect Sizes (per SD change) |
Classification Metrics
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Other Metrics
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Covariates Included in the Model
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PGS Performance: Other Relevant Information |
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PPM000228 | PGS000098 (lymph_p) | PSS000163| European Ancestry| 81,464 individuals | PGP000051 | Xu Y et al. Cell Genom (2022) | Reported Trait: Lymphocyte percentage of white cells | — | — | Pearson correlation coefficent (r): 0.33396 | age, 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 | UKB 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 |
PPM000229 | PGS000098 (lymph_p) | PSS000137| European Ancestry| 39,178 individuals | PGP000051 | Xu Y et al. Cell Genom (2022) | Reported Trait: Lymphocyte percentage of white cells | — | — | Pearson correlation coefficent (r): 0.3313 | age, 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 | — |
PPM000529 | PGS000173 (lymph_p) | PSS000291| European Ancestry| 39,260 individuals | PGP000078 | Vuckovic D et al. Cell (2020) | Reported Trait: Lymphocyte percentage of white cells | — | — | R²: 0.06965 | sex, age, 10 genetic PCs | — |
PPM007050 | PGS001414 (GBE_INI30180) | PSS006991| African Ancestry| 6,120 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Lymphocyte % | — | — | R²: 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 | — |
PPM007051 | PGS001414 (GBE_INI30180) | PSS006992| East Asian Ancestry| 1,654 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Lymphocyte % | — | — | R²: 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 | — |
PPM007052 | PGS001414 (GBE_INI30180) | PSS006993| European Ancestry| 24,130 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Lymphocyte % | — | — | R²: 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 | — |
PPM007053 | PGS001414 (GBE_INI30180) | PSS006994| South Asian Ancestry| 7,491 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Lymphocyte % | — | — | R²: 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 | — |
PPM007054 | PGS001414 (GBE_INI30180) | PSS006995| European Ancestry| 65,520 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Lymphocyte % | — | — | R²: 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 | — |
PPM010763 | PGS001986 (portability-PLR_lymphocyte_perc) | PSS009473| European Ancestry| 19,383 individuals | PGP000263 | Privé F et al. Am J Hum Genet (2022) | Reported Trait: Lymphocyte percentage | — | — | Partial Correlation (partial-r): 0.314 [0.3012, 0.3266] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM010764 | PGS001986 (portability-PLR_lymphocyte_perc) | PSS009247| European Ancestry| 3,992 individuals | PGP000263 | Privé F et al. Am J Hum Genet (2022) | Reported Trait: Lymphocyte percentage | — | — | Partial Correlation (partial-r): 0.2972 [0.2686, 0.3253] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM010765 | PGS001986 (portability-PLR_lymphocyte_perc) | PSS008801| European Ancestry| 6,417 individuals | PGP000263 | Privé F et al. Am J Hum Genet (2022) | Reported Trait: Lymphocyte percentage | — | — | Partial Correlation (partial-r): 0.3022 [0.2798, 0.3243] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM010766 | PGS001986 (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 percentage | — | — | Partial Correlation (partial-r): 0.2825 [0.228, 0.3353] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM010767 | PGS001986 (portability-PLR_lymphocyte_perc) | PSS008353| South Asian Ancestry| 6,056 individuals | PGP000263 | Privé F et al. Am J Hum Genet (2022) | Reported Trait: Lymphocyte percentage | — | — | Partial Correlation (partial-r): 0.2722 [0.2487, 0.2954] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM010768 | PGS001986 (portability-PLR_lymphocyte_perc) | PSS008130| East Asian Ancestry| 1,761 individuals | PGP000263 | Privé F et al. Am J Hum Genet (2022) | Reported Trait: Lymphocyte percentage | — | — | Partial Correlation (partial-r): 0.2475 [0.2028, 0.291] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM010769 | PGS001986 (portability-PLR_lymphocyte_perc) | PSS007917| African Ancestry| 2,337 individuals | PGP000263 | Privé F et al. Am J Hum Genet (2022) | Reported Trait: Lymphocyte percentage | — | — | Partial Correlation (partial-r): 0.1708 [0.131, 0.21] | sex, age, birth date, deprivation index, 16 PCs | — |
PGS Sample Set ID (PSS) |
Phenotype Definitions and Methods
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Participant Follow-up Time
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Sample Numbers
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Age of Study Participants
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Sample Ancestry
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Additional Ancestry Description
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Cohort(s)
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Additional Sample/Cohort Information
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PSS000137 | — | — | 39,178 individuals, 50.0 % Male samples | Mean = 43.82 years Range = [18.0, 76.4] years | European | — | INTERVAL | — |
PSS000163 | — | — | 81,464 individuals, 46.0 % Male samples | Mean = 57.22 years Range = [40.17, 71.1] years | European | — | UKB | — |
PSS000291 | — | — | 39,260 individuals | — | European | — | INTERVAL | — |
PSS006991 | — | — | 6,120 individuals | — | African unspecified | — | UKB | — |
PSS006992 | — | — | 1,654 individuals | — | East Asian | — | UKB | — |
PSS006993 | — | — | 24,130 individuals | — | European | non-white British ancestry | UKB | — |
PSS006994 | — | — | 7,491 individuals | — | South Asian | — | UKB | — |
PSS006995 | — | — | 65,520 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |
PSS007917 | — | — | 2,337 individuals | — | African American or Afro-Caribbean | Carribean | UKB | — |
PSS008130 | — | — | 1,761 individuals | — | East Asian | China (East Asia) | UKB | — |
PSS008353 | — | — | 6,056 individuals | — | South Asian | India (South Asia) | UKB | — |
PSS008575 | — | — | 1,150 individuals | — | Greater Middle Eastern (Middle Eastern, North African or Persian) | Iran (Middle East) | UKB | — |
PSS008801 | — | — | 6,417 individuals | — | European | Italy (South Europe) | UKB | — |
PSS009021 | — | — | 3,695 individuals | — | African unspecified | Nigeria (West Africa) | UKB | — |
PSS009247 | — | — | 3,992 individuals | — | European | Poland (NE Europe) | UKB | — |