Polygenic Score (PGS) ID: PGS003570

Predicted Trait
Reported Trait Mean sphered cell volume
Mapped Trait(s) mean corpuscular volume (EFO_0004526)
Released in PGS Catalog: April 12, 2023
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Score Details

Score Construction
PGS Name cont-decay-sphered_cell_volume
Development Method
Name LDpred2-auto
Parameters vec_p_init = seq_log(1e-4, 0.9, length.out = 10), burn_in = 100, num_iter = 500, report_step = 5
Variants
Original Genome Build GRCh37
Number of Variants 979,739
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000457
Citation (link to publication) Ding Y et al. bioRxiv (2022) Preprint
Ancestry Distribution
Score Development/Training
European: 100%
353,786 individuals (100%)
PGS Evaluation
European: 44.4%
African: 22.2%
East Asian: 11.1%
Greater Middle Eastern: 11.1%
South Asian: 11.1%
9 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
— 353,786 individuals,
0.46 % Male samples
 European UKB — Mean = 56.8 years
Sd = 8.0 years		 — white British —

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
PPM017834 PSS010266|
European Ancestry|
2,220 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Mean sphered cell volume — — partial-R2: 0.16 sex, age, deprivation index, PC1-16 —
PPM017498 PSS010938|
European Ancestry|
19,109 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Mean sphered cell volume — — partial-R2: 0.16 sex, age, deprivation index, PC1-16 —
PPM017582 PSS010854|
European Ancestry|
3,913 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Mean sphered cell volume — — partial-R2: 0.15 sex, age, deprivation index, PC1-16 —
PPM017750 PSS010602|
Greater Middle Eastern Ancestry|
1,096 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Mean sphered cell volume — — partial-R2: 0.12 sex, age, deprivation index, PC1-16 —
PPM017918 PSS010518|
South Asian Ancestry|
5,885 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Mean sphered cell volume — — partial-R2: 0.1 sex, age, deprivation index, PC1-16 —
PPM018002 PSS010434|
East Asian Ancestry|
1,711 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Mean sphered cell volume — — partial-R2: 0.08 sex, age, deprivation index, PC1-16 —
PPM018086 PSS010350|
African Ancestry|
2,280 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Mean sphered cell volume — — partial-R2: 0.04 sex, age, deprivation index, PC1-16 —
PPM017666 PSS010686|
European Ancestry|
6,139 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Mean sphered cell volume — — partial-R2: 0.13 sex, age, deprivation index, PC1-16 —
PPM018170 PSS010770|
African Ancestry|
3,573 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Mean sphered cell volume — — partial-R2: 0.02 sex, age, deprivation index, PC1-16 —

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
PSS010686 — — 6,139 individuals,
45.0 % Male samples
 Mean = 54.4 years
Sd = 8.4 years		 European Italian UKB —
PSS010434 — — 1,711 individuals,
33.0 % Male samples
 Mean = 52.4 years
Sd = 7.8 years		 East Asian Chinese UKB —
PSS010938 — — 19,109 individuals,
46.0 % Male samples
 Mean = 56.9 years
Sd = 7.9 years		 European white British UKB —
PSS010854 — — 3,913 individuals,
38.0 % Male samples
 Mean = 54.3 years
Sd = 7.5 years		 European Polish UKB —
PSS010602 — — 1,096 individuals,
59.0 % Male samples
 Mean = 52.0 years
Sd = 8.0 years		 Greater Middle Eastern (Middle Eastern, North African or Persian) Iranian UKB —
PSS010350 — — 2,280 individuals,
37.0 % Male samples
 Mean = 52.4 years
Sd = 8.0 years		 African American or Afro-Caribbean Caribbean UKB —
PSS010770 — — 3,573 individuals,
47.0 % Male samples
 Mean = 51.9 years
Sd = 8.1 years		 African unspecified Nigerian UKB —
PSS010518 — — 5,885 individuals,
55.0 % Male samples
 Mean = 53.3 years
Sd = 8.4 years		 South Asian Indian UKB —
PSS010266 — — 2,220 individuals,
45.0 % Male samples
 Mean = 58.0 years
Sd = 7.1 years		 European Ashkenazi UKB —