Experimental Factor Ontology (EFO) Information | |
Identifier | EFO_0009253 |
Description | The determination of the ratio of immature reticulocytes to total reticulocytes present in a sample. [ NCI ] | Trait category |
Hematological measurement
|
Synonyms |
3 synonyms
|
Mapped terms |
2 mapped terms
|
Polygenic Score ID & Name | PGS Publication ID (PGP) | Reported Trait | Mapped Trait(s) (Ontology) | Number of Variants |
Ancestry distribution GWAS Dev Eval |
Scoring File (FTP Link) |
---|---|---|---|---|---|---|
PGS001408 (GBE_INI30280) |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Immature reticulocyte fraction | Immature Reticulocyte Fraction Measurement | 10,871 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001408/ScoringFiles/PGS001408.txt.gz |
PGS001930 (portability-PLR_immature_reticulocyte_frac) |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Immature reticulocyte fraction | Immature Reticulocyte Fraction Measurement | 39,162 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001930/ScoringFiles/PGS001930.txt.gz |
PGS002147 (portability-ldpred2_immature_reticulocyte_frac) |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Immature reticulocyte fraction | Immature Reticulocyte Fraction Measurement | 664,696 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002147/ScoringFiles/PGS002147.txt.gz |
PGS003950 (INI30280) |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Immature reticulocyte fraction | Immature Reticulocyte Fraction Measurement | 16,307 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003950/ScoringFiles/PGS003950.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 |
---|---|---|---|---|---|---|---|---|---|
PPM007065 | PGS001408 (GBE_INI30280) |
PSS007031| African Ancestry| 5,973 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Immature reticulocyte fraction | — | — | R²: 0.03195 [0.02354, 0.04036] Incremental R2 (full-covars): 0.01989 PGS R2 (no covariates): 0.01953 [0.01287, 0.02619] |
age, sex, UKB array type, Genotype PCs | — |
PPM007066 | PGS001408 (GBE_INI30280) |
PSS007032| East Asian Ancestry| 1,623 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Immature reticulocyte fraction | — | — | R²: 0.04983 [0.02973, 0.06992] Incremental R2 (full-covars): 0.02998 PGS R2 (no covariates): 0.03394 [0.01708, 0.05081] |
age, sex, UKB array type, Genotype PCs | — |
PPM007067 | PGS001408 (GBE_INI30280) |
PSS007033| European Ancestry| 23,680 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Immature reticulocyte fraction | — | — | R²: 0.10073 [0.09364, 0.10782] Incremental R2 (full-covars): 0.08989 PGS R2 (no covariates): 0.09045 [0.08366, 0.09725] |
age, sex, UKB array type, Genotype PCs | — |
PPM007068 | PGS001408 (GBE_INI30280) |
PSS007034| South Asian Ancestry| 7,321 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Immature reticulocyte fraction | — | — | R²: 0.07122 [0.06025, 0.0822] Incremental R2 (full-covars): 0.05964 PGS R2 (no covariates): 0.06252 [0.05214, 0.0729] |
age, sex, UKB array type, Genotype PCs | — |
PPM007069 | PGS001408 (GBE_INI30280) |
PSS007035| European Ancestry| 64,524 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Immature reticulocyte fraction | — | — | R²: 0.09976 [0.09547, 0.10405] Incremental R2 (full-covars): 0.0902 PGS R2 (no covariates): 0.09063 [0.0865, 0.09477] |
age, sex, UKB array type, Genotype PCs | — |
PPM010315 | PGS001930 (portability-PLR_immature_reticulocyte_frac) |
PSS009417| European Ancestry| 19,121 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Immature reticulocyte fraction | — | — | Partial Correlation (partial-r): 0.3146 [0.3017, 0.3273] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM010316 | PGS001930 (portability-PLR_immature_reticulocyte_frac) |
PSS009191| European Ancestry| 3,924 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Immature reticulocyte fraction | — | — | Partial Correlation (partial-r): 0.3213 [0.2928, 0.3491] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM010317 | PGS001930 (portability-PLR_immature_reticulocyte_frac) |
PSS008745| European Ancestry| 6,298 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Immature reticulocyte fraction | — | — | Partial Correlation (partial-r): 0.3224 [0.3, 0.3444] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM010318 | PGS001930 (portability-PLR_immature_reticulocyte_frac) |
PSS008519| Greater Middle Eastern Ancestry| 1,127 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Immature reticulocyte fraction | — | — | Partial Correlation (partial-r): 0.2696 [0.214, 0.3234] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM010319 | PGS001930 (portability-PLR_immature_reticulocyte_frac) |
PSS008297| South Asian Ancestry| 5,937 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Immature reticulocyte fraction | — | — | Partial Correlation (partial-r): 0.2631 [0.2392, 0.2867] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM010320 | PGS001930 (portability-PLR_immature_reticulocyte_frac) |
PSS008074| East Asian Ancestry| 1,722 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Immature reticulocyte fraction | — | — | Partial Correlation (partial-r): 0.2154 [0.1696, 0.2602] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM010321 | PGS001930 (portability-PLR_immature_reticulocyte_frac) |
PSS007861| African Ancestry| 2,294 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Immature reticulocyte fraction | — | — | Partial Correlation (partial-r): 0.1811 [0.141, 0.2205] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM010322 | PGS001930 (portability-PLR_immature_reticulocyte_frac) |
PSS008965| African Ancestry| 3,602 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Immature reticulocyte fraction | — | — | Partial Correlation (partial-r): 0.1665 [0.1345, 0.1982] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM012023 | PGS002147 (portability-ldpred2_immature_reticulocyte_frac) |
PSS009417| European Ancestry| 19,121 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Immature reticulocyte fraction | — | — | Partial Correlation (partial-r): 0.3135 [0.3007, 0.3263] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM012024 | PGS002147 (portability-ldpred2_immature_reticulocyte_frac) |
PSS009191| European Ancestry| 3,924 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Immature reticulocyte fraction | — | — | Partial Correlation (partial-r): 0.3215 [0.2931, 0.3494] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM012025 | PGS002147 (portability-ldpred2_immature_reticulocyte_frac) |
PSS008745| European Ancestry| 6,298 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Immature reticulocyte fraction | — | — | Partial Correlation (partial-r): 0.3195 [0.2971, 0.3416] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM012026 | PGS002147 (portability-ldpred2_immature_reticulocyte_frac) |
PSS008519| Greater Middle Eastern Ancestry| 1,127 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Immature reticulocyte fraction | — | — | Partial Correlation (partial-r): 0.2889 [0.234, 0.342] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM012027 | PGS002147 (portability-ldpred2_immature_reticulocyte_frac) |
PSS008297| South Asian Ancestry| 5,937 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Immature reticulocyte fraction | — | — | Partial Correlation (partial-r): 0.2624 [0.2385, 0.286] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM012028 | PGS002147 (portability-ldpred2_immature_reticulocyte_frac) |
PSS008074| East Asian Ancestry| 1,722 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Immature reticulocyte fraction | — | — | Partial Correlation (partial-r): 0.2089 [0.163, 0.2539] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM012029 | PGS002147 (portability-ldpred2_immature_reticulocyte_frac) |
PSS007861| African Ancestry| 2,294 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Immature reticulocyte fraction | — | — | Partial Correlation (partial-r): 0.1842 [0.1442, 0.2236] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM012030 | PGS002147 (portability-ldpred2_immature_reticulocyte_frac) |
PSS008965| African Ancestry| 3,602 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Immature reticulocyte fraction | — | — | Partial Correlation (partial-r): 0.174 [0.1421, 0.2056] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM019069 | PGS003950 (INI30280) |
PSS011143| European Ancestry| 64,816 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Immature reticulocyte fraction | — | — | R²: 0.10325 [0.09891, 0.10759] PGS R2 (no covariates): 0.09279 [0.08863, 0.09695] Incremental R2 (full-covars): 0.09226 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM019070 | PGS003950 (INI30280) |
PSS011100| European Ancestry| 2,768 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Immature reticulocyte fraction | — | — | R²: 0.09801 [0.07746, 0.11857] PGS R2 (no covariates): 0.09403 [0.07381, 0.11425] Incremental R2 (full-covars): 0.09203 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM019071 | PGS003950 (INI30280) |
PSS011111| South Asian Ancestry| 1,393 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Immature reticulocyte fraction | — | — | R²: 0.06095 [0.03744, 0.08446] PGS R2 (no covariates): 0.05417 [0.03184, 0.07649] Incremental R2 (full-covars): 0.05046 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM019072 | PGS003950 (INI30280) |
PSS011152| African Ancestry| 1,124 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Immature reticulocyte fraction | — | — | R²: 0.04778 [0.02442, 0.07113] PGS R2 (no covariates): 0.03953 [0.0181, 0.06096] Incremental R2 (full-covars): 0.0407 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM019073 | PGS003950 (INI30280) |
PSS011170| Multi-ancestry (excluding European)| 7,574 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Immature reticulocyte fraction | — | — | R²: 0.10912 [0.09624, 0.12201] PGS R2 (no covariates): 0.08182 [0.07032, 0.09332] Incremental R2 (full-covars): 0.08036 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
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 |
---|---|---|---|---|---|---|---|---|
PSS008965 | — | — | 3,602 individuals | — | African unspecified | Nigeria (West Africa) | UKB | — |
PSS009191 | — | — | 3,924 individuals | — | European | Poland (NE Europe) | UKB | — |
PSS008519 | — | — | 1,127 individuals | — | Greater Middle Eastern (Middle Eastern, North African or Persian) | Iran (Middle East) | UKB | — |
PSS009417 | — | — | 19,121 individuals | — | European | UK (+ Ireland) | UKB | — |
PSS008745 | — | — | 6,298 individuals | — | European | Italy (South Europe) | UKB | — |
PSS008297 | — | — | 5,937 individuals | — | South Asian | India (South Asia) | UKB | — |
PSS008074 | — | — | 1,722 individuals | — | East Asian | China (East Asia) | UKB | — |
PSS011143 | — | — | 64,816 individuals | — | European (white British ancestry) |
— | UKB | — |
PSS011111 | — | — | 1,393 individuals | — | South Asian | — | UKB | — |
PSS011152 | — | — | 1,124 individuals | — | African unspecified | — | UKB | — |
PSS011170 | — | — | 7,574 individuals | — | East Asian, Other admixed ancestry | East Asian, Other admixed ancestry | UKB | — |
PSS007861 | — | — | 2,294 individuals | — | African American or Afro-Caribbean | Carribean | UKB | — |
PSS011100 | — | — | 2,768 individuals | — | European (non-white British ancestry) |
— | UKB | — |
PSS007031 | — | — | 5,973 individuals | — | African unspecified | — | UKB | — |
PSS007032 | — | — | 1,623 individuals | — | East Asian | — | UKB | — |
PSS007033 | — | — | 23,680 individuals | — | European | non-white British ancestry | UKB | — |
PSS007034 | — | — | 7,321 individuals | — | South Asian | — | UKB | — |
PSS007035 | — | — | 64,524 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |