Polygenic Score (PGS) ID: PGS003610

Predicted Trait
Reported Trait Left CA1 head volume
Mapped Trait(s) hippocampal CA1 volume (EFO_0009394)
Released in PGS Catalog: April 28, 2023
Download Score FTP directory
Terms and Licenses
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 L_CA1_head_trans_ancestry_meta_analysis
Development Method
Name PRSice
Parameters The PGS was calculated using PRSice v.2.3.5 software with LD-pruning on the base datasets (clump-kb = 250kb, clump-r2 = 0.1). PRSice performed optimization of the P-value threshold for the most accurate prediction, as measured by r-squared (R2)
Variants
Original Genome Build GRCh37
Number of Variants 792
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000464
Citation (link to publication) Liu N et al. Nat Genet (2023)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 86.5%
East Asian: 13.5%
36,978 individuals (100%)
PGS Evaluation
East Asian: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
Europe PMC: 37337106
 31,968 individuals European UKB
Europe PMC: 37337106
 5,010 individuals East Asian CHIMGEN

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
PPM018293 PSS010958|
East Asian Ancestry|
1,999 individuals
 PGP000464 |
Liu N et al. Nat Genet (2023)
 Reported Trait: Left CA1 head volume — — R²: 0.01741 sex, age, age2, age × sex, total intracranial volume, and top six genetic principal components —

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
PSS010958 — — 1,999 individuals — East Asian — CHIMGEN —