Polygenic Score (PGS) ID: PGS004034

Predicted Trait
Reported Trait Alzheimer's disease
Mapped Trait(s) Alzheimer disease (MONDO_0004975)
Released in PGS Catalog: Dec. 19, 2023
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Score Details

Score Construction
PGS Name ldpred2.auto.GCST90012877.AD
Development Method
Name LDpred2-auto
Parameters auto
Variants
Original Genome Build GRCh38
Number of Variants 1,046,908
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000517
Citation (link to publication) Monti R et al. Am J Hum Genet (2024)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
472,868 individuals (100%)
PGS Evaluation
European: 100%
3 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST90012877
Europe PMC: 33589840
 472,868 individuals European NR

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
PPM019928 PSS011213|
European Ancestry|
199,274 individuals
 PGP000517 |
Monti R et al. Am J Hum Genet (2024)
 Reported Trait: AD OR: 1.45859 [1.35624817, 1.56865365]
β: 0.37747 [0.30472219, 0.4502177]		 AUROC: 0.60532 [0.5803355, 0.63030351] R²: 0.02833 [0.01664267, 0.04228284] 0 beta = log(or)/sd_pgs
PPM019929 PSS011226|
European Ancestry|
389,004 individuals
 PGP000517 |
Monti R et al. Am J Hum Genet (2024)
 Reported Trait: AD OR: 1.5321 [1.50892339, 1.55564048]
β: 0.42664 [0.41139641, 0.44188734]		 AUROC: 0.6237 [0.61877662, 0.62862975] R²: 0.0349 [0.03207661, 0.03776512] 0 beta = log(or)/sd_pgs
PPM019930 PSS011252|
European Ancestry|
66,865 individuals
 PGP000517 |
Monti R et al. Am J Hum Genet (2024)
 Reported Trait: AD OR: 1.78882 [1.71250526, 1.86854552]
β: 0.58156 [0.53795736, 0.62516033]		 AUROC: 0.67205 [0.65778828, 0.68630804] R²: 0.07132 [0.06110042, 0.08413551] 0 beta = log(or)/sd_pgs

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
PSS011226 G6_AD_WIDE, ICD10: G30|F00, ICD9: 3310 —
[
  • 13,823 cases
  • , 375,181 controls
]
 — European — FinnGen —
PSS011252 — —
[
  • 1,562 cases
  • , 65,303 controls
]
 — European — HUNT —
PSS011213 — —
[
  • 555 cases
  • , 198,719 controls
]
 — European — EB —