PGS Preprint: PGP000051

Publication Information (EuropePMC)
Title Learning polygenic scores for human blood cell traits
doi 10.1101/2020.02.17.952788
Publication Date Feb. 18, 2020
Journal bioRxiv Preprint
Author(s) Xu Y, Vuckovic D, Ritchie SC, Akbari P, Jiang T, Grealey J, Butterworth AS, Ouwehand WH, Roberts DJ, Di Angelantonio E, Danesh J, Soranzo N, Inouye M.
Released in PGS Catalog: Feb. 19, 2020

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:
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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

PGS Developed By This Publication

Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution Scoring File (FTP Link)
PGS000094
(hlr)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
High light scatter reticulocyte count reticulocyte count 605
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000094/ScoringFiles/PGS000094.txt.gz
PGS000095
(hlr_p)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
High light scatter reticulocyte percentage of red cells reticulocyte count 594
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000095/ScoringFiles/PGS000095.txt.gz
PGS000093
(hgb)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Hemoglobin concentration hemoglobin measurement 532
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000093/ScoringFiles/PGS000093.txt.gz
PGS000105
(neut)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Neutrophil count neutrophil count 512
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000105/ScoringFiles/PGS000105.txt.gz
PGS000101
(mcv)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Mean corpuscular volume mean corpuscular volume 739
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000101/ScoringFiles/PGS000101.txt.gz
PGS000106
(neut_p)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Neutrophil percentage of white cells neutrophil percentage of leukocytes 452
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000106/ScoringFiles/PGS000106.txt.gz
PGS000102
(mono)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Monocyte count monocyte count 674
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000102/ScoringFiles/PGS000102.txt.gz
PGS000103
(mono_p)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Monocyte percentage of white cells monocyte percentage of leukocytes 583
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000103/ScoringFiles/PGS000103.txt.gz
PGS000111
(ret)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reticulocyte count reticulocyte count 590
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000111/ScoringFiles/PGS000111.txt.gz
PGS000113
(wbc)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
White blood cell count leukocyte count 659
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000113/ScoringFiles/PGS000113.txt.gz
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
PGS000092
(hct)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Hematocrit hematocrit 513
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000092/ScoringFiles/PGS000092.txt.gz
PGS000096
(irf)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Immature fraction of reticulocytes reticulocyte count 390
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000096/ScoringFiles/PGS000096.txt.gz
PGS000112
(ret_p)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reticulocyte fraction of red cells reticulocyte count 572
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000112/ScoringFiles/PGS000112.txt.gz
PGS000104
(mpv)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Mean platelet volume mean platelet volume 681
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000104/ScoringFiles/PGS000104.txt.gz
PGS000108
(pdw)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Platelet distribution width platelet component distribution width 579
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000108/ScoringFiles/PGS000108.txt.gz
PGS000091
(eo_p)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Eosinophil percentage of white cells eosinophil percentage of leukocytes 589
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000091/ScoringFiles/PGS000091.txt.gz
PGS000107
(pct)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Plateletcrit platelet crit 726
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000107/ScoringFiles/PGS000107.txt.gz
PGS000098
(lymph_p)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Lymphocyte percentage of white cells lymphocyte percentage of leukocytes 489
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000098/ScoringFiles/PGS000098.txt.gz
PGS000109
(plt)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Platelet count platelet count 762
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000109/ScoringFiles/PGS000109.txt.gz
PGS000097
(lymph)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Lymphocyte count lymphocyte count 639
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000097/ScoringFiles/PGS000097.txt.gz
PGS000088
(baso)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Basophil count basophil count 198
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000088/ScoringFiles/PGS000088.txt.gz
PGS000100
(mchc)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Mean corpuscular hemoglobin concentration mean corpuscular hemoglobin concentration 252
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000100/ScoringFiles/PGS000100.txt.gz
PGS000090
(eo)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Eosinophil count eosinophil count 623
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000090/ScoringFiles/PGS000090.txt.gz
PGS000099
(mch)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Mean corpuscular hemoglobin mean corpuscular hemoglobin 682
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000099/ScoringFiles/PGS000099.txt.gz
PGS000110
(rbc)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Red blood cell count erythrocyte count 707
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000110/ScoringFiles/PGS000110.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
PPM000208 PGS000088
(baso)
PSS000153|
European Ancestry|
80,944 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Basophil count Pearson correlation coefficent (r): 0.2021 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)
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)
PPM000212 PGS000090
(eo)
PSS000155|
European Ancestry|
81,294 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Eosinophil count Pearson correlation coefficent (r): 0.383 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)
PPM000214 PGS000091
(eo_p)
PSS000156|
European Ancestry|
81,283 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Eosinophil percentage of white cells Pearson correlation coefficent (r): 0.3687 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)
PPM000216 PGS000092
(hct)
PSS000157|
European Ancestry|
81,622 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Hematocrit Pearson correlation coefficent (r): 0.3271 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)
PPM000218 PGS000093
(hgb)
PSS000158|
European Ancestry|
81,548 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Hemoglobin concentration Pearson correlation coefficent (r): 0.3425 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)
PPM000220 PGS000094
(hlr)
PSS000159|
European Ancestry|
80,067 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: High light scatter reticulocyte count Pearson correlation coefficent (r): 0.4294 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)
PPM000222 PGS000095
(hlr_p)
PSS000160|
European Ancestry|
80,088 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: High light scatter reticulocyte percentage of red cells Pearson correlation coefficent (r): 0.4385 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)
PPM000224 PGS000096
(irf)
PSS000161|
European Ancestry|
79,282 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Immature fraction of reticulocytes Pearson correlation coefficent (r): 0.3512 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)
PPM000226 PGS000097
(lymph)
PSS000162|
European Ancestry|
81,455 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Lymphocyte count Pearson correlation coefficent (r): 0.369 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)
PPM000228 PGS000098
(lymph_p)
PSS000163|
European Ancestry|
81,464 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Lymphocyte percentage of white cells Pearson correlation coefficent (r): 0.3046 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)
PPM000230 PGS000099
(mch)
PSS000164|
European Ancestry|
81,303 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Mean corpuscular hemoglobin Pearson correlation coefficent (r): 0.5252 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)
PPM000232 PGS000100
(mchc)
PSS000165|
European Ancestry|
81,570 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Mean corpuscular hemoglobin concentration Pearson correlation coefficent (r): 0.2755 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)
PPM000234 PGS000101
(mcv)
PSS000166|
European Ancestry|
81,431 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Mean corpuscular volume Pearson correlation coefficent (r): 0.537 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)
PPM000236 PGS000102
(mono)
PSS000167|
European Ancestry|
80,799 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Monocyte count Pearson correlation coefficent (r): 0.4644 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)
PPM000238 PGS000103
(mono_p)
PSS000168|
European Ancestry|
80,627 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Monocyte percentage of white cells Pearson correlation coefficent (r): 0.4395 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)
PPM000240 PGS000104
(mpv)
PSS000169|
European Ancestry|
78,320 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Mean platelet volume Pearson correlation coefficent (r): 0.5811 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)
PPM000242 PGS000105
(neut)
PSS000170|
European Ancestry|
81,358 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Neutrophil count Pearson correlation coefficent (r): 0.3359 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)
PPM000244 PGS000106
(neut_p)
PSS000171|
European Ancestry|
81,423 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Neutrophil percentage of white cells Pearson correlation coefficent (r): 0.2924 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)
PPM000246 PGS000107
(pct)
PSS000172|
European Ancestry|
78,161 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Plateletcrit Pearson correlation coefficent (r): 0.4584 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)
PPM000248 PGS000108
(pdw)
PSS000173|
European Ancestry|
78,290 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Platelet distribution width Pearson correlation coefficent (r): 0.4784 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)
PPM000250 PGS000109
(plt)
PSS000174|
European Ancestry|
78,246 individuals
PGP000051 |
Xu Y et al. bioRxiv (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)
PPM000252 PGS000110
(rbc)
PSS000175|
European Ancestry|
81,614 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Red blood cell count Pearson correlation coefficent (r): 0.4029 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)
PPM000254 PGS000111
(ret)
PSS000176|
European Ancestry|
79,344 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Reticulocyte count Pearson correlation coefficent (r): 0.4241 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)
PPM000256 PGS000112
(ret_p)
PSS000177|
European Ancestry|
79,362 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Reticulocyte fraction of red cells Pearson correlation coefficent (r): 0.4316 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)
PPM000258 PGS000113
(wbc)
PSS000178|
European Ancestry|
81,606 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: White blood cell count Pearson correlation coefficent (r): 0.3655 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|
European Ancestry|
38,939 individuals
PGP000051 |
Xu Y et al. bioRxiv (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)
PPM000253 PGS000110
(rbc)
PSS000149|
European Ancestry|
40,262 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Red blood cell count Pearson correlation coefficent (r): 0.3631 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)
PPM000209 PGS000088
(baso)
PSS000127|
European Ancestry|
39,986 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Basophil count Pearson correlation coefficent (r): 0.1804 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)
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)
PPM000213 PGS000090
(eo)
PSS000129|
European Ancestry|
40,276 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Eosinophil count Pearson correlation coefficent (r): 0.3556 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)
PPM000215 PGS000091
(eo_p)
PSS000130|
European Ancestry|
40,326 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Eosinophil percentage of white cells Pearson correlation coefficent (r): 0.3412 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)
PPM000217 PGS000092
(hct)
PSS000131|
European Ancestry|
40,340 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Hematocrit Pearson correlation coefficent (r): 0.2458 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)
PPM000219 PGS000093
(hgb)
PSS000132|
European Ancestry|
40,329 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Hemoglobin concentration Pearson correlation coefficent (r): 0.2567 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)
PPM000221 PGS000094
(hlr)
PSS000133|
European Ancestry|
40,244 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: High light scatter reticulocyte count Pearson correlation coefficent (r): 0.363 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)
PPM000223 PGS000095
(hlr_p)
PSS000134|
European Ancestry|
40,225 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: High light scatter reticulocyte percentage of red cells Pearson correlation coefficent (r): 0.3687 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)
PPM000225 PGS000096
(irf)
PSS000135|
European Ancestry|
40,227 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Immature fraction of reticulocytes Pearson correlation coefficent (r): 0.3367 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)
PPM000227 PGS000097
(lymph)
PSS000136|
European Ancestry|
39,191 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Lymphocyte count Pearson correlation coefficent (r): 0.3511 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)
PPM000229 PGS000098
(lymph_p)
PSS000137|
European Ancestry|
39,178 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Lymphocyte percentage of white cells Pearson correlation coefficent (r): 0.2817 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)
PPM000231 PGS000099
(mch)
PSS000138|
European Ancestry|
40,108 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Mean corpuscular hemoglobin Pearson correlation coefficent (r): 0.4583 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)
PPM000233 PGS000100
(mchc)
PSS000139|
European Ancestry|
40,265 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Mean corpuscular hemoglobin concentration Pearson correlation coefficent (r): 0.2642 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)
PPM000235 PGS000101
(mcv)
PSS000140|
European Ancestry|
40,080 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Mean corpuscular volume Pearson correlation coefficent (r): 0.4384 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)
PPM000237 PGS000102
(mono)
PSS000141|
European Ancestry|
39,177 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Monocyte count Pearson correlation coefficent (r): 0.4319 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)
PPM000239 PGS000103
(mono_p)
PSS000142|
European Ancestry|
39,189 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Monocyte percentage of white cells Pearson correlation coefficent (r): 0.4207 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)
PPM000241 PGS000104
(mpv)
PSS000143|
European Ancestry|
37,224 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Mean platelet volume Pearson correlation coefficent (r): 0.5759 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)
PPM000243 PGS000105
(neut)
PSS000144|
European Ancestry|
39,138 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Neutrophil count Pearson correlation coefficent (r): 0.3159 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)
PPM000245 PGS000106
(neut_p)
PSS000145|
European Ancestry|
39,190 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Neutrophil percentage of white cells Pearson correlation coefficent (r): 0.2774 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)
PPM000247 PGS000107
(pct)
PSS000146|
European Ancestry|
37,306 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Plateletcrit Pearson correlation coefficent (r): 0.4375 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)
PPM000249 PGS000108
(pdw)
PSS000147|
European Ancestry|
37,262 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Platelet distribution width Pearson correlation coefficent (r): 0.2701 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)
PPM000255 PGS000111
(ret)
PSS000150|
European Ancestry|
40,253 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Reticulocyte count Pearson correlation coefficent (r): 0.4069 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)
PPM000257 PGS000112
(ret_p)
PSS000151|
European Ancestry|
40,286 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: Reticulocyte fraction of red cells Pearson correlation coefficent (r): 0.423 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)
PPM000259 PGS000113
(wbc)
PSS000152|
European Ancestry|
40,466 individuals
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Reported Trait: White blood cell count Pearson correlation coefficent (r): 0.3394 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)

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
PSS000127 39,986 individuals,
50.0 % Male samples
Mean = 43.87 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000128 40,133 individuals,
50.0 % Male samples
Mean = 43.92 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000129 40,276 individuals,
49.0 % Male samples
Mean = 43.84 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000130 40,326 individuals,
49.0 % Male samples
Mean = 43.83 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000131 40,340 individuals,
49.0 % Male samples
Mean = 43.84 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000132 40,329 individuals,
49.0 % Male samples
Mean = 43.84 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000133 40,244 individuals,
49.0 % Male samples
Mean = 43.84 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000134 40,225 individuals,
49.0 % Male samples
Mean = 43.84 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000135 40,227 individuals,
49.0 % Male samples
Mean = 43.85 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000136 39,191 individuals,
50.0 % Male samples
Mean = 43.82 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000137 39,178 individuals,
50.0 % Male samples
Mean = 43.82 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000138 40,108 individuals,
50.0 % Male samples
Mean = 43.85 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000139 40,265 individuals,
50.0 % Male samples
Mean = 43.83 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000140 40,080 individuals,
50.0 % Male samples
Mean = 43.82 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000141 39,177 individuals,
50.0 % Male samples
Mean = 43.82 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000142 39,189 individuals,
50.0 % Male samples
Mean = 43.83 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000143 37,224 individuals,
50.0 % Male samples
Mean = 43.8 years
Range = [18.0, 75.7] years
European INTERVAL
PSS000144 39,138 individuals,
50.0 % Male samples
Mean = 43.84 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000145 39,190 individuals,
50.0 % Male samples
Mean = 43.83 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000146 37,306 individuals,
49.0 % Male samples
Mean = 43.82 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000147 37,262 individuals,
50.0 % Male samples
Mean = 43.81 years
Range = [18.0, 75.8] years
European INTERVAL
PSS000148 38,939 individuals,
49.0 % Male samples
Mean = 43.75 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000149 40,262 individuals,
49.0 % Male samples
Mean = 43.84 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000150 40,253 individuals,
49.0 % Male samples
Mean = 43.84 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000151 40,286 individuals,
49.0 % Male samples
Mean = 43.84 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000152 40,466 individuals,
49.0 % Male samples
Mean = 43.84 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000153 80,944 individuals,
46.0 % Male samples
Mean = 57.21 years
Range = [40.05, 70.91] years
European UKB
PSS000154 80,906 individuals,
46.0 % Male samples
Mean = 57.2 years
Range = [40.18, 72.91] years
European UKB
PSS000155 81,294 individuals,
46.0 % Male samples
Mean = 57.2 years
Range = [39.98, 72.44] years
European UKB
PSS000156 81,283 individuals,
45.0 % Male samples
Mean = 57.19 years
Range = [38.87, 71.1] years
European UKB
PSS000157 81,622 individuals,
46.0 % Male samples
Mean = 57.26 years
Range = [40.11, 72.44] years
European UKB
PSS000158 81,548 individuals,
46.0 % Male samples
Mean = 57.23 years
Range = [40.16, 72.91] years
European UKB
PSS000159 80,067 individuals,
46.0 % Male samples
Mean = 57.2 years
Range = [39.91, 70.52] years
European UKB
PSS000160 80,088 individuals,
46.0 % Male samples
Mean = 57.19 years
Range = [39.66, 72.91] years
European UKB
PSS000161 79,282 individuals,
46.0 % Male samples
Mean = 57.28 years
Range = [39.91, 70.99] years
European UKB
PSS000162 81,455 individuals,
45.0 % Male samples
Mean = 57.23 years
Range = [40.05, 71.07] years
European UKB
PSS000163 81,464 individuals,
46.0 % Male samples
Mean = 57.22 years
Range = [40.17, 71.1] years
European UKB
PSS000164 81,303 individuals,
46.0 % Male samples
Mean = 57.27 years
Range = [39.99, 70.44] years
European UKB
PSS000165 81,570 individuals,
46.0 % Male samples
Mean = 57.27 years
Range = [39.98, 70.7] years
European UKB
PSS000166 81,431 individuals,
46.0 % Male samples
Mean = 57.26 years
Range = [40.15, 71.1] years
European UKB
PSS000167 80,799 individuals,
46.0 % Male samples
Mean = 57.23 years
Range = [39.66, 70.7] years
European UKB
PSS000168 80,627 individuals,
46.0 % Male samples
Mean = 57.23 years
Range = [40.19, 71.1] years
European UKB
PSS000169 78,320 individuals,
46.0 % Male samples
Mean = 57.26 years
Range = [38.87, 70.99] years
European UKB
PSS000170 81,358 individuals,
45.0 % Male samples
Mean = 57.19 years
Range = [40.19, 72.44] years
European UKB
PSS000171 81,423 individuals,
46.0 % Male samples
Mean = 57.25 years
Range = [39.99, 70.5] years
European UKB
PSS000172 78,161 individuals,
46.0 % Male samples
Mean = 57.2 years
Range = [39.66, 72.91] years
European UKB
PSS000173 78,290 individuals,
46.0 % Male samples
Mean = 57.2 years
Range = [39.99, 70.53] years
European UKB
PSS000174 78,246 individuals,
46.0 % Male samples
Mean = 57.23 years
Range = [39.98, 70.43] years
European UKB
PSS000175 81,614 individuals,
45.0 % Male samples
Mean = 57.26 years
Range = [39.99, 70.99] years
European UKB
PSS000176 79,344 individuals,
46.0 % Male samples
Mean = 57.29 years
Range = [39.66, 72.91] years
European UKB
PSS000177 79,362 individuals,
46.0 % Male samples
Mean = 57.22 years
Range = [39.66, 72.91] years
European UKB
PSS000178 81,606 individuals,
46.0 % Male samples
Mean = 57.23 years
Range = [38.87, 70.97] years
European UKB