Trait: Immature Reticulocyte Fraction Measurement

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
  • IRF
  • Immature Reticulocyte Fraction
  • Measurement of Immature Reticulocyte Fraction
Mapped terms 2 mapped terms
  • NCIt:C102276
  • UMLS:C1446165

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)
PGS001408
(GBE_INI30280)
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
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

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
PPM007065 PGS001408
(GBE_INI30280)
PSS007031|
African Ancestry|
5,973 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Immature reticulocyte fraction : 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. medRxiv (2021)
|Pre
Reported Trait: Immature reticulocyte fraction : 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. medRxiv (2021)
|Pre
Reported Trait: Immature reticulocyte fraction : 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. medRxiv (2021)
|Pre
Reported Trait: Immature reticulocyte fraction : 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. medRxiv (2021)
|Pre
Reported Trait: Immature reticulocyte fraction : 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

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
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
PSS007861 2,294 individuals African American or Afro-Caribbean Carribean 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)