Polygenic Score (PGS) ID: PGS001079

Predicted Trait
Reported Trait Platelet distribution width
Mapped Trait(s) platelet component distribution width (EFO_0007984)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI30110
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_INI30110
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 18,814
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%
262,210 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
— 262,210 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
PPM008153 PSS006961|
African Ancestry|
6,139 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Platelet distribution width — — R²: 0.08809 [0.07494, 0.10125]
Incremental R2 (full-covars): 0.05017
PGS R2 (no covariates): 0.05279 [0.04222, 0.06337]		 age, sex, UKB array type, Genotype PCs —
PPM008154 PSS006962|
East Asian Ancestry|
1,655 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Platelet distribution width — — R²: 0.1275 [0.09798, 0.15703]
Incremental R2 (full-covars): 0.09522
PGS R2 (no covariates): 0.09877 [0.07193, 0.12561]		 age, sex, UKB array type, Genotype PCs —
PPM008155 PSS006963|
European Ancestry|
24,171 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Platelet distribution width — — R²: 0.2279 [0.21875, 0.23705]
Incremental R2 (full-covars): 0.20117
PGS R2 (no covariates): 0.2053 [0.19636, 0.21424]		 age, sex, UKB array type, Genotype PCs —
PPM008156 PSS006964|
South Asian Ancestry|
7,519 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Platelet distribution width — — R²: 0.18488 [0.16936, 0.2004]
Incremental R2 (full-covars): 0.16662
PGS R2 (no covariates): 0.16657 [0.15151, 0.18163]		 age, sex, UKB array type, Genotype PCs —
PPM008157 PSS006965|
European Ancestry|
65,601 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Platelet distribution width — — R²: 0.22746 [0.2219, 0.23302]
Incremental R2 (full-covars): 0.20559
PGS R2 (no covariates): 0.20528 [0.19985, 0.21072]		 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
PSS006961 — — 6,139 individuals — African unspecified — UKB —
PSS006962 — — 1,655 individuals — East Asian — UKB —
PSS006963 — — 24,171 individuals — European non-white British ancestry UKB —
PSS006964 — — 7,519 individuals — South Asian — UKB —
PSS006965 — — 65,601 individuals — European white British ancestry UKB Testing cohort (heldout set)