Experimental Factor Ontology (EFO) Information | |
Identifier | EFO_0010701 |
Description | Mean volume of reticulocyte cells | Trait category |
Hematological measurement
|
Polygenic Score ID & Name | PGS Publication ID (PGP) | Reported Trait | Mapped Trait(s) (Ontology) | Number of Variants | Ancestry distribution | Scoring File (FTP Link) |
---|---|---|---|---|---|---|
PGS000180 (mrv) |
PGP000078 | Vuckovic D et al. Cell (2020) |
Mean reticulocyte volume | mean reticulocyte volume | 629 | - - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000180/ScoringFiles/PGS000180.txt.gz |
PGS000987 (GBE_INI30260) |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Mean reticulocyte volume | mean reticulocyte volume | 13,277 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000987/ScoringFiles/PGS000987.txt.gz |
PGS002003 (portability-PLR_reticulocyte_volume) |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Mean reticulocyte volume | mean reticulocyte volume | 24,536 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002003/ScoringFiles/PGS002003.txt.gz |
PGS002221 (portability-ldpred2_reticulocyte_volume) |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Mean reticulocyte volume | mean reticulocyte volume | 523,074 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002221/ScoringFiles/PGS002221.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 |
---|---|---|---|---|---|---|---|---|---|
PPM007703 | PGS000987 (GBE_INI30260) |
PSS007026| African Ancestry| 5,973 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean reticulocyte volume | — | — | R²: 0.03718 [0.02815, 0.0462] Incremental R2 (full-covars): 0.02777 PGS R2 (no covariates): 0.02867 [0.02068, 0.03667] |
age, sex, UKB array type, Genotype PCs | — |
PPM007704 | PGS000987 (GBE_INI30260) |
PSS007027| East Asian Ancestry| 1,623 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean reticulocyte volume | — | — | R²: 0.08812 [0.06247, 0.11377] Incremental R2 (full-covars): 0.07173 PGS R2 (no covariates): 0.07447 [0.05053, 0.0984] |
age, sex, UKB array type, Genotype PCs | — |
PPM007705 | PGS000987 (GBE_INI30260) |
PSS007028| European Ancestry| 23,687 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean reticulocyte volume | — | — | R²: 0.1616 [0.15323, 0.16997] Incremental R2 (full-covars): 0.14435 PGS R2 (no covariates): 0.1455 [0.1374, 0.15359] |
age, sex, UKB array type, Genotype PCs | — |
PPM007706 | PGS000987 (GBE_INI30260) |
PSS007029| South Asian Ancestry| 7,323 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean reticulocyte volume | — | — | R²: 0.13294 [0.11894, 0.14694] Incremental R2 (full-covars): 0.09343 PGS R2 (no covariates): 0.09786 [0.08537, 0.11036] |
age, sex, UKB array type, Genotype PCs | — |
PPM007707 | PGS000987 (GBE_INI30260) |
PSS007030| European Ancestry| 64,570 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean reticulocyte volume | — | — | R²: 0.15675 [0.15171, 0.16179] Incremental R2 (full-covars): 0.14554 PGS R2 (no covariates): 0.14631 [0.14138, 0.15124] |
age, sex, UKB array type, Genotype PCs | — |
PPM010898 | PGS002003 (portability-PLR_reticulocyte_volume) |
PSS009487| European Ancestry| 19,120 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Mean reticulocyte volume | — | — | Partial Correlation (partial-r): 0.3934 [0.3814, 0.4054] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM010899 | PGS002003 (portability-PLR_reticulocyte_volume) |
PSS009261| European Ancestry| 3,924 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Mean reticulocyte volume | — | — | Partial Correlation (partial-r): 0.3882 [0.3612, 0.4145] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM010900 | PGS002003 (portability-PLR_reticulocyte_volume) |
PSS008815| European Ancestry| 6,298 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Mean reticulocyte volume | — | — | Partial Correlation (partial-r): 0.3774 [0.356, 0.3984] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM010901 | PGS002003 (portability-PLR_reticulocyte_volume) |
PSS008589| Greater Middle Eastern Ancestry| 1,127 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Mean reticulocyte volume | — | — | Partial Correlation (partial-r): 0.3348 [0.2815, 0.3861] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM010902 | PGS002003 (portability-PLR_reticulocyte_volume) |
PSS008367| South Asian Ancestry| 5,935 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Mean reticulocyte volume | — | — | Partial Correlation (partial-r): 0.3217 [0.2986, 0.3443] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM010903 | PGS002003 (portability-PLR_reticulocyte_volume) |
PSS008143| East Asian Ancestry| 1,722 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Mean reticulocyte volume | — | — | Partial Correlation (partial-r): 0.2638 [0.219, 0.3074] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM010904 | PGS002003 (portability-PLR_reticulocyte_volume) |
PSS007931| African Ancestry| 2,293 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Mean reticulocyte volume | — | — | Partial Correlation (partial-r): 0.2125 [0.1729, 0.2514] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM010905 | PGS002003 (portability-PLR_reticulocyte_volume) |
PSS009035| African Ancestry| 3,602 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Mean reticulocyte volume | — | — | Partial Correlation (partial-r): 0.1616 [0.1296, 0.1934] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM012614 | PGS002221 (portability-ldpred2_reticulocyte_volume) |
PSS009487| European Ancestry| 19,120 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Mean reticulocyte volume | — | — | Partial Correlation (partial-r): 0.3894 [0.3773, 0.4014] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM012615 | PGS002221 (portability-ldpred2_reticulocyte_volume) |
PSS009261| European Ancestry| 3,924 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Mean reticulocyte volume | — | — | Partial Correlation (partial-r): 0.3877 [0.3608, 0.4141] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM012616 | PGS002221 (portability-ldpred2_reticulocyte_volume) |
PSS008815| European Ancestry| 6,298 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Mean reticulocyte volume | — | — | Partial Correlation (partial-r): 0.3736 [0.3521, 0.3947] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM012617 | PGS002221 (portability-ldpred2_reticulocyte_volume) |
PSS008589| Greater Middle Eastern Ancestry| 1,127 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Mean reticulocyte volume | — | — | Partial Correlation (partial-r): 0.3308 [0.2773, 0.3823] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM012618 | PGS002221 (portability-ldpred2_reticulocyte_volume) |
PSS008367| South Asian Ancestry| 5,935 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Mean reticulocyte volume | — | — | Partial Correlation (partial-r): 0.3152 [0.2921, 0.338] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM012619 | PGS002221 (portability-ldpred2_reticulocyte_volume) |
PSS008143| East Asian Ancestry| 1,722 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Mean reticulocyte volume | — | — | Partial Correlation (partial-r): 0.2541 [0.2091, 0.298] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM012620 | PGS002221 (portability-ldpred2_reticulocyte_volume) |
PSS007931| African Ancestry| 2,293 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Mean reticulocyte volume | — | — | Partial Correlation (partial-r): 0.2118 [0.1722, 0.2507] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM012621 | PGS002221 (portability-ldpred2_reticulocyte_volume) |
PSS009035| African Ancestry| 3,602 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Mean reticulocyte volume | — | — | Partial Correlation (partial-r): 0.1834 [0.1516, 0.2149] | 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 |
---|---|---|---|---|---|---|---|---|
PSS009035 | — | — | 3,602 individuals | — | African unspecified | Nigeria (West Africa) | UKB | — |
PSS009261 | — | — | 3,924 individuals | — | European | Poland (NE Europe) | UKB | — |
PSS008589 | — | — | 1,127 individuals | — | Greater Middle Eastern (Middle Eastern, North African or Persian) | Iran (Middle East) | UKB | — |
PSS009487 | — | — | 19,120 individuals | — | European | UK (+ Ireland) | UKB | — |
PSS008815 | — | — | 6,298 individuals | — | European | Italy (South Europe) | UKB | — |
PSS008367 | — | — | 5,935 individuals | — | South Asian | India (South Asia) | UKB | — |
PSS008143 | — | — | 1,722 individuals | — | East Asian | China (East Asia) | UKB | — |
PSS007931 | — | — | 2,293 individuals | — | African American or Afro-Caribbean | Carribean | UKB | — |
PSS007026 | — | — | 5,973 individuals | — | African unspecified | — | UKB | — |
PSS007027 | — | — | 1,623 individuals | — | East Asian | — | UKB | — |
PSS007028 | — | — | 23,687 individuals | — | European | non-white British ancestry | UKB | — |
PSS007029 | — | — | 7,323 individuals | — | South Asian | — | UKB | — |
PSS007030 | — | — | 64,570 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |