Polygenic Score (PGS) ID: PGS000987

Predicted Trait
Reported Trait Mean reticulocyte volume
Mapped Trait(s) mean reticulocyte volume (EFO_0010701)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI30260
Released in PGS Catalog: Oct. 21, 2021
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PGS obtained from the Catalog should be cited appropriately, and used in accordance with any licensing restrictions set by the authors. See EBI Terms of Use (https://www.ebi.ac.uk/about/terms-of-use/) for additional details.

Score Details

Score Construction
PGS Name GBE_INI30260
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 13,277
Effect Weight Type NR
PGS Source
PGS Catalog Publication (PGP) ID PGP000244
Citation (link to publication) Tanigawa Y et al. PLoS Genet (2022)
Ancestry Distribution
Score Development/Training
European: 100%
258,297 individuals (100%)
PGS Evaluation
European: 40%
African: 20%
East Asian: 20%
South Asian: 20%
5 Sample Sets

Development Samples

Score Development/Training
Study Identifiers Sample Numbers Sample Ancestry Cohort(s) Phenotype Definitions & Methods Age of Study Participants Participant Follow-up Time Additional Ancestry Description Additional Sample/Cohort Information
— 258,297 individuals European UKB — — — white British ancestry —

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) 		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 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 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 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 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 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 —

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
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)