Trait: mean platelet volume

Experimental Factor Ontology (EFO) Information
Identifier EFO_0004584
Description A measurement of mean platelet volume is a machine-calculated measurement of the average size of platelets found in blood
Trait category
Hematological measurement
Mapped terms 2 mapped terms
  • MeSH:D063847
  • MedDRA:10050539

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)
PGS000104
(mpv)
PGP000051 |
Xu Y et al. Cell Genom (2022)
Mean platelet volume mean platelet volume 25,745
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000104/ScoringFiles/PGS000104.txt.gz
PGS000179
(mpv)
PGP000078 |
Vuckovic D et al. Cell (2020)
Mean platelet volume mean platelet volume 654
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000179/ScoringFiles/PGS000179.txt.gz
PGS001200
(GBE_INI30100)
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Mean platelet volume mean platelet volume 24,114
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001200/ScoringFiles/PGS001200.txt.gz
PGS001971
(portability-PLR_log_platelet_volume)
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Mean platelet (thrombocyte) volume mean platelet volume 65,450
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001971/ScoringFiles/PGS001971.txt.gz
PGS002189
(portability-ldpred2_log_platelet_volume)
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Mean platelet (thrombocyte) volume mean platelet volume 462,934
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002189/ScoringFiles/PGS002189.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
PPM000240 PGS000104
(mpv)
PSS000169|
European Ancestry|
78,320 individuals
PGP000051 |
Xu Y et al. Cell Genom (2022)
Reported Trait: Mean platelet volume Pearson correlation coefficent (r): 0.61214 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)
PPM000241 PGS000104
(mpv)
PSS000143|
European Ancestry|
37,224 individuals
PGP000051 |
Xu Y et al. Cell Genom (2022)
Reported Trait: Mean platelet volume Pearson correlation coefficent (r): 0.60875 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)
PPM000555 PGS000179
(mpv)
PSS000290|
European Ancestry|
2,314 individuals
PGP000078 |
Vuckovic D et al. Cell (2020)
Reported Trait: Mean platelet volume : 0.19379 sex, age, 10 genetic PCs
PPM000535 PGS000179
(mpv)
PSS000291|
European Ancestry|
39,260 individuals
PGP000078 |
Vuckovic D et al. Cell (2020)
Reported Trait: Mean platelet volume : 0.27306 sex, age, 10 genetic PCs
PPM001776 PGS000179
(mpv)
PSS000911|
Greater Middle Eastern Ancestry|
13,989 individuals
PGP000147 |
Thareja G et al. Nat Commun (2021)
|Ext.
Reported Trait: Mean platelet volume Pearson correlation coefficent (r): 0.51
PPM008619 PGS001200
(GBE_INI30100)
PSS006956|
African Ancestry|
6,139 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Mean platelet volume : 0.11523 [0.10064, 0.12983]
Incremental R2 (full-covars): 0.10713
PGS R2 (no covariates): 0.10764 [0.09341, 0.12187]
age, sex, UKB array type, Genotype PCs
PPM008620 PGS001200
(GBE_INI30100)
PSS006957|
East Asian Ancestry|
1,655 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Mean platelet volume : 0.22982 [0.19483, 0.26481]
Incremental R2 (full-covars): 0.1912
PGS R2 (no covariates): 0.20572 [0.17158, 0.23986]
age, sex, UKB array type, Genotype PCs
PPM008621 PGS001200
(GBE_INI30100)
PSS006958|
European Ancestry|
24,175 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Mean platelet volume : 0.36048 [0.35094, 0.37001]
Incremental R2 (full-covars): 0.35332
PGS R2 (no covariates): 0.3577 [0.34816, 0.36724]
age, sex, UKB array type, Genotype PCs
PPM008622 PGS001200
(GBE_INI30100)
PSS006959|
South Asian Ancestry|
7,520 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Mean platelet volume : 0.26489 [0.24813, 0.28164]
Incremental R2 (full-covars): 0.25606
PGS R2 (no covariates): 0.25974 [0.24303, 0.27644]
age, sex, UKB array type, Genotype PCs
PPM008623 PGS001200
(GBE_INI30100)
PSS006960|
European Ancestry|
65,636 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Mean platelet volume : 0.36177 [0.35598, 0.36757]
Incremental R2 (full-covars): 0.35994
PGS R2 (no covariates): 0.36024 [0.35444, 0.36603]
age, sex, UKB array type, Genotype PCs
PPM010643 PGS001971
(portability-PLR_log_platelet_volume)
PSS009461|
European Ancestry|
19,423 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean platelet (thrombocyte) volume Partial Correlation (partial-r): 0.6032 [0.5942, 0.6121] sex, age, birth date, deprivation index, 16 PCs
PPM010644 PGS001971
(portability-PLR_log_platelet_volume)
PSS009235|
European Ancestry|
4,002 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean platelet (thrombocyte) volume Partial Correlation (partial-r): 0.6067 [0.5867, 0.626] sex, age, birth date, deprivation index, 16 PCs
PPM010645 PGS001971
(portability-PLR_log_platelet_volume)
PSS008789|
European Ancestry|
6,437 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean platelet (thrombocyte) volume Partial Correlation (partial-r): 0.5713 [0.5546, 0.5875] sex, age, birth date, deprivation index, 16 PCs
PPM010646 PGS001971
(portability-PLR_log_platelet_volume)
PSS008563|
Greater Middle Eastern Ancestry|
1,153 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean platelet (thrombocyte) volume Partial Correlation (partial-r): 0.5283 [0.485, 0.5691] sex, age, birth date, deprivation index, 16 PCs
PPM010647 PGS001971
(portability-PLR_log_platelet_volume)
PSS008341|
South Asian Ancestry|
6,078 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean platelet (thrombocyte) volume Partial Correlation (partial-r): 0.5282 [0.5098, 0.5461] sex, age, birth date, deprivation index, 16 PCs
PPM010648 PGS001971
(portability-PLR_log_platelet_volume)
PSS008118|
East Asian Ancestry|
1,762 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean platelet (thrombocyte) volume Partial Correlation (partial-r): 0.4452 [0.4067, 0.4821] sex, age, birth date, deprivation index, 16 PCs
PPM010649 PGS001971
(portability-PLR_log_platelet_volume)
PSS007905|
African Ancestry|
2,343 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean platelet (thrombocyte) volume Partial Correlation (partial-r): 0.3353 [0.2987, 0.3709] sex, age, birth date, deprivation index, 16 PCs
PPM010650 PGS001971
(portability-PLR_log_platelet_volume)
PSS009009|
African Ancestry|
3,711 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean platelet (thrombocyte) volume Partial Correlation (partial-r): 0.3125 [0.2831, 0.3414] sex, age, birth date, deprivation index, 16 PCs
PPM012359 PGS002189
(portability-ldpred2_log_platelet_volume)
PSS009461|
European Ancestry|
19,423 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean platelet (thrombocyte) volume Partial Correlation (partial-r): 0.5923 [0.5831, 0.6013] sex, age, birth date, deprivation index, 16 PCs
PPM012360 PGS002189
(portability-ldpred2_log_platelet_volume)
PSS009235|
European Ancestry|
4,002 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean platelet (thrombocyte) volume Partial Correlation (partial-r): 0.5914 [0.5709, 0.6113] sex, age, birth date, deprivation index, 16 PCs
PPM012361 PGS002189
(portability-ldpred2_log_platelet_volume)
PSS008789|
European Ancestry|
6,437 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean platelet (thrombocyte) volume Partial Correlation (partial-r): 0.5603 [0.5433, 0.5769] sex, age, birth date, deprivation index, 16 PCs
PPM012362 PGS002189
(portability-ldpred2_log_platelet_volume)
PSS008563|
Greater Middle Eastern Ancestry|
1,153 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean platelet (thrombocyte) volume Partial Correlation (partial-r): 0.5196 [0.4758, 0.5609] sex, age, birth date, deprivation index, 16 PCs
PPM012363 PGS002189
(portability-ldpred2_log_platelet_volume)
PSS008341|
South Asian Ancestry|
6,078 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean platelet (thrombocyte) volume Partial Correlation (partial-r): 0.5166 [0.4979, 0.5348] sex, age, birth date, deprivation index, 16 PCs
PPM012364 PGS002189
(portability-ldpred2_log_platelet_volume)
PSS008118|
East Asian Ancestry|
1,762 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean platelet (thrombocyte) volume Partial Correlation (partial-r): 0.444 [0.4054, 0.4809] sex, age, birth date, deprivation index, 16 PCs
PPM012365 PGS002189
(portability-ldpred2_log_platelet_volume)
PSS007905|
African Ancestry|
2,343 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean platelet (thrombocyte) volume Partial Correlation (partial-r): 0.3231 [0.2862, 0.3591] sex, age, birth date, deprivation index, 16 PCs
PPM012366 PGS002189
(portability-ldpred2_log_platelet_volume)
PSS009009|
African Ancestry|
3,711 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean platelet (thrombocyte) volume Partial Correlation (partial-r): 0.2907 [0.2609, 0.3199] sex, age, birth date, deprivation index, 16 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
PSS000169 78,320 individuals,
46.0 % Male samples
Mean = 57.26 years
Range = [38.87, 70.99] years
European UKB
PSS000290 2,314 individuals European
(French Canadian)
CARTaGENE
PSS000291 39,260 individuals European INTERVAL
PSS000143 37,224 individuals,
50.0 % Male samples
Mean = 43.8 years
Range = [18.0, 75.7] years
European INTERVAL
PSS009009 3,711 individuals African unspecified Nigeria (West Africa) UKB
PSS009235 4,002 individuals European Poland (NE Europe) UKB
PSS000911 13,989 individuals Greater Middle Eastern (Middle Eastern, North African or Persian)
(Qatari)
QBB
PSS006956 6,139 individuals African unspecified UKB
PSS006957 1,655 individuals East Asian UKB
PSS006958 24,175 individuals European non-white British ancestry UKB
PSS006959 7,520 individuals South Asian UKB
PSS006960 65,636 individuals European white British ancestry UKB Testing cohort (heldout set)
PSS009461 19,423 individuals European UK (+ Ireland) UKB
PSS008789 6,437 individuals European Italy (South Europe) UKB
PSS008563 1,153 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB
PSS008341 6,078 individuals South Asian India (South Asia) UKB
PSS008118 1,762 individuals East Asian China (East Asia) UKB
PSS007905 2,343 individuals African American or Afro-Caribbean Carribean UKB