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
|
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 |
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 | — | — | R²: 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 | — | — | R²: 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 | — | — | R²: 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 | — | — | R²: 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 | — | — | R²: 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 | — | — | R²: 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 | — | — | R²: 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 | — |
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 | — |