Trait: platelet count

Experimental Factor Ontology (EFO) Information
Identifier EFO_0004309
Description The number of PLATELETS per unit volume in a sample of venous BLOOD.
Trait category
Hematological measurement
Synonyms blood platelet number
Mapped term(s) 4 mapped terms
  • MeSH:D010976
  • MedDRA:10035525
  • NCIt:C51951
  • SNOMEDCT:61928009

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)
PGS000109
(plt)
PGP000051 |
Xu Y et al. bioRxiv (2020)
|Pre
Platelet count platelet count 762
http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000109/ScoringFiles/PGS000109.txt.gz
PGS000186
(plt)
PGP000078 |
Vuckovic D et al. Cell (2020)
Platelet count platelet count 739
-
http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000186/ScoringFiles/PGS000186.txt.gz
PGS001238
(GBE_INI30080)
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Platelet count platelet count 24,893
-
http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001238/ScoringFiles/PGS001238.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
PPM000540 PGS000186
(plt)
PSS000291|
European Ancestry|
39,260 individuals
PGP000078 |
Vuckovic D et al. Cell (2020)
Reported Trait: Platelet count : 0.19195 sex, age, 10 genetic PCs
PPM000557 PGS000186
(plt)
PSS000290|
European Ancestry|
2,314 individuals
PGP000078 |
Vuckovic D et al. Cell (2020)
Reported Trait: Platelet count : 0.16049 sex, age, 10 genetic PCs
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)
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)
PPM001775 PGS000186
(plt)
PSS000911|
Greater Middle Eastern Ancestry|
13,989 individuals
PGP000147 |
Thareja G et al. Nat Commun (2021)
|Ext.
Reported Trait: Platelet count Pearson correlation coefficent (r): 0.35
PPM004647 PGS001238
(GBE_INI30080)
PSS003110|
European Ancestry|
65,637 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Platelet count : 0.26699
Incremental R2 (full-covars): 0.20882
PGS R2 (no covariates): 0.20987
age, sex Genotype PCs
PPM004646 PGS001238
(GBE_INI30080)
PSS003109|
South Asian Ancestry|
7,520 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Platelet count : 0.24088
Incremental R2 (full-covars): 0.15169
PGS R2 (no covariates): 0.153
age, sex Genotype PCs
PPM004645 PGS001238
(GBE_INI30080)
PSS003108|
European Ancestry|
24,175 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Platelet count : 0.26397
Incremental R2 (full-covars): 0.21573
PGS R2 (no covariates): 0.21973
age, sex Genotype PCs
PPM004644 PGS001238
(GBE_INI30080)
PSS003107|
East Asian Ancestry|
1,655 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Platelet count : 0.14398
Incremental R2 (full-covars): 0.09414
PGS R2 (no covariates): 0.09846
age, sex Genotype PCs
PPM004643 PGS001238
(GBE_INI30080)
PSS003106|
African Ancestry|
6,139 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Platelet count : 0.13129
Incremental R2 (full-covars): 0.04423
PGS R2 (no covariates): 0.04881
age, sex Genotype 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
PSS000290 2,314 individuals European
(French Canadian)
CARTaGENE
PSS000291 39,260 individuals European INTERVAL
PSS000174 78,246 individuals,
46.0 % Male samples
Mean = 57.23 years
Range = [39.98, 70.43] years
European UKB
PSS000148 38,939 individuals,
49.0 % Male samples
Mean = 43.75 years
Range = [18.0, 76.4] years
European INTERVAL
PSS000911 13,989 individuals Greater Middle Eastern (Middle Eastern, North African or Persian)
(Qatari)
QBB
PSS003106 6,139 individuals African unspecified UKB
PSS003107 1,655 individuals East Asian UKB
PSS003108 24,175 individuals European non-white British ancestry UKB
PSS003109 7,520 individuals South Asian UKB
PSS003110 65,637 individuals European white British ancestry UKB