Trait: platelet crit

Experimental Factor Ontology (EFO) Information
Identifier EFO_0007985
Description The proportion of blood volume that is occupied by platelets, expressed as a percentage.
Trait category
Hematological measurement
Synonyms 4 synonyms
  • PCT
  • platelet crit (PCT)
  • plateletcrit
  • plateletcrit (PCT)
Mapped term CMO:0001349

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)
PGS000107
(pct)
PGP000051 |
Xu Y et al. Cell Genom (2022)
Plateletcrit platelet crit 30,459
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000107/ScoringFiles/PGS000107.txt.gz
PGS000184
(pct)
PGP000078 |
Vuckovic D et al. Cell (2020)
Plateletcrit platelet crit 700
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000184/ScoringFiles/PGS000184.txt.gz
PGS001517
(GBE_INI30090)
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Platelet crit platelet crit 20,910
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001517/ScoringFiles/PGS001517.txt.gz
PGS001970
(portability-PLR_log_platelet_crit)
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Platelet crit platelet crit 56,402
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001970/ScoringFiles/PGS001970.txt.gz
PGS002188
(portability-ldpred2_log_platelet_crit)
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Platelet crit platelet crit 703,576
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002188/ScoringFiles/PGS002188.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
PPM000246 PGS000107
(pct)
PSS000172|
European Ancestry|
78,161 individuals
PGP000051 |
Xu Y et al. Cell Genom (2022)
Reported Trait: Plateletcrit Pearson correlation coefficent (r): 0.49284 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)
PPM000247 PGS000107
(pct)
PSS000146|
European Ancestry|
37,306 individuals
PGP000051 |
Xu Y et al. Cell Genom (2022)
Reported Trait: Plateletcrit Pearson correlation coefficent (r): 0.48865 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)
PPM000538 PGS000184
(pct)
PSS000291|
European Ancestry|
39,260 individuals
PGP000078 |
Vuckovic D et al. Cell (2020)
Reported Trait: Plateletcrit : 0.1555 sex, age, 10 genetic PCs
PPM007040 PGS001517
(GBE_INI30090)
PSS006951|
African Ancestry|
6,139 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Platelet crit : 0.1382 [0.12263, 0.15377]
Incremental R2 (full-covars): 0.02064
PGS R2 (no covariates): 0.0286 [0.02062, 0.03659]
age, sex, UKB array type, Genotype PCs
PPM007041 PGS001517
(GBE_INI30090)
PSS006952|
East Asian Ancestry|
1,655 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Platelet crit : 0.15738 [0.1257, 0.18906]
Incremental R2 (full-covars): 0.08366
PGS R2 (no covariates): 0.07725 [0.05295, 0.10155]
age, sex, UKB array type, Genotype PCs
PPM007042 PGS001517
(GBE_INI30090)
PSS006953|
European Ancestry|
24,171 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Platelet crit : 0.23874 [0.2295, 0.24797]
Incremental R2 (full-covars): 0.16467
PGS R2 (no covariates): 0.16697 [0.15852, 0.17543]
age, sex, UKB array type, Genotype PCs
PPM007043 PGS001517
(GBE_INI30090)
PSS006954|
South Asian Ancestry|
7,519 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Platelet crit : 0.23898 [0.2225, 0.25545]
Incremental R2 (full-covars): 0.10472
PGS R2 (no covariates): 0.10873 [0.09572, 0.12174]
age, sex, UKB array type, Genotype PCs
PPM007044 PGS001517
(GBE_INI30090)
PSS006955|
European Ancestry|
65,601 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Platelet crit : 0.24748 [0.24183, 0.25313]
Incremental R2 (full-covars): 0.16016
PGS R2 (no covariates): 0.16141 [0.15632, 0.16649]
age, sex, UKB array type, Genotype PCs
PPM010635 PGS001970
(portability-PLR_log_platelet_crit)
PSS009460|
European Ancestry|
19,422 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Platelet crit Partial Correlation (partial-r): 0.4299 [0.4184, 0.4413] sex, age, birth date, deprivation index, 16 PCs
PPM010636 PGS001970
(portability-PLR_log_platelet_crit)
PSS009234|
European Ancestry|
4,002 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Platelet crit Partial Correlation (partial-r): 0.4361 [0.4106, 0.4609] sex, age, birth date, deprivation index, 16 PCs
PPM010637 PGS001970
(portability-PLR_log_platelet_crit)
PSS008788|
European Ancestry|
6,436 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Platelet crit Partial Correlation (partial-r): 0.4086 [0.388, 0.4288] sex, age, birth date, deprivation index, 16 PCs
PPM010639 PGS001970
(portability-PLR_log_platelet_crit)
PSS008340|
South Asian Ancestry|
6,076 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Platelet crit Partial Correlation (partial-r): 0.3614 [0.3393, 0.3831] sex, age, birth date, deprivation index, 16 PCs
PPM010640 PGS001970
(portability-PLR_log_platelet_crit)
PSS008117|
East Asian Ancestry|
1,762 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Platelet crit Partial Correlation (partial-r): 0.3104 [0.2674, 0.3523] sex, age, birth date, deprivation index, 16 PCs
PPM010641 PGS001970
(portability-PLR_log_platelet_crit)
PSS007904|
African Ancestry|
2,343 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Platelet crit Partial Correlation (partial-r): 0.1795 [0.1398, 0.2185] sex, age, birth date, deprivation index, 16 PCs
PPM010642 PGS001970
(portability-PLR_log_platelet_crit)
PSS009008|
African Ancestry|
3,711 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Platelet crit Partial Correlation (partial-r): 0.1907 [0.1594, 0.2216] sex, age, birth date, deprivation index, 16 PCs
PPM010638 PGS001970
(portability-PLR_log_platelet_crit)
PSS008562|
Greater Middle Eastern Ancestry|
1,153 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Platelet crit Partial Correlation (partial-r): 0.3976 [0.3474, 0.4455] sex, age, birth date, deprivation index, 16 PCs
PPM012351 PGS002188
(portability-ldpred2_log_platelet_crit)
PSS009460|
European Ancestry|
19,422 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Platelet crit Partial Correlation (partial-r): 0.4219 [0.4103, 0.4334] sex, age, birth date, deprivation index, 16 PCs
PPM012352 PGS002188
(portability-ldpred2_log_platelet_crit)
PSS009234|
European Ancestry|
4,002 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Platelet crit Partial Correlation (partial-r): 0.4319 [0.4063, 0.4568] sex, age, birth date, deprivation index, 16 PCs
PPM012353 PGS002188
(portability-ldpred2_log_platelet_crit)
PSS008788|
European Ancestry|
6,436 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Platelet crit Partial Correlation (partial-r): 0.4045 [0.3839, 0.4248] sex, age, birth date, deprivation index, 16 PCs
PPM012355 PGS002188
(portability-ldpred2_log_platelet_crit)
PSS008340|
South Asian Ancestry|
6,076 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Platelet crit Partial Correlation (partial-r): 0.357 [0.3348, 0.3788] sex, age, birth date, deprivation index, 16 PCs
PPM012356 PGS002188
(portability-ldpred2_log_platelet_crit)
PSS008117|
East Asian Ancestry|
1,762 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Platelet crit Partial Correlation (partial-r): 0.3181 [0.2753, 0.3597] sex, age, birth date, deprivation index, 16 PCs
PPM012357 PGS002188
(portability-ldpred2_log_platelet_crit)
PSS007904|
African Ancestry|
2,343 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Platelet crit Partial Correlation (partial-r): 0.2035 [0.1642, 0.2422] sex, age, birth date, deprivation index, 16 PCs
PPM012358 PGS002188
(portability-ldpred2_log_platelet_crit)
PSS009008|
African Ancestry|
3,711 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Platelet crit Partial Correlation (partial-r): 0.1849 [0.1536, 0.2159] sex, age, birth date, deprivation index, 16 PCs
PPM012354 PGS002188
(portability-ldpred2_log_platelet_crit)
PSS008562|
Greater Middle Eastern Ancestry|
1,153 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Platelet crit Partial Correlation (partial-r): 0.3907 [0.3402, 0.439] 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
PSS000291 39,260 individuals European INTERVAL
PSS000172 78,161 individuals,
46.0 % Male samples
Mean = 57.2 years
Range = [39.66, 72.91] years
European UKB
PSS006951 6,139 individuals African unspecified UKB
PSS006952 1,655 individuals East Asian UKB
PSS006953 24,171 individuals European non-white British ancestry UKB
PSS000146 37,306 individuals,
49.0 % Male samples
Mean = 43.82 years
Range = [18.0, 76.4] years
European INTERVAL
PSS006954 7,519 individuals South Asian UKB
PSS006955 65,601 individuals European white British ancestry UKB Testing cohort (heldout set)
PSS009460 19,422 individuals European UK (+ Ireland) UKB
PSS009234 4,002 individuals European Poland (NE Europe) UKB
PSS008788 6,436 individuals European Italy (South Europe) UKB
PSS008340 6,076 individuals South Asian India (South Asia) UKB
PSS008117 1,762 individuals East Asian China (East Asia) UKB
PSS008562 1,153 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB
PSS009008 3,711 individuals African unspecified Nigeria (West Africa) UKB
PSS007904 2,343 individuals African American or Afro-Caribbean Carribean UKB