Polygenic Score (PGS) ID: PGS000334

Predicted Trait
Reported Trait Late-onset Alzheimer’s disease
Mapped Trait(s) late-onset Alzheimer's disease (EFO_1001870)
Released in PGS Catalog: Oct. 16, 2020
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Score Details

Score Construction
PGS Name GRSfull_22
Development Method
Name Clumping and Thresholding (C+T)
Parameters p < 1e-8; r2 threshold = 0.01; HapMap3 SNPs (MAF > 0.01)
Variants
Original Genome Build GRCh37
Number of Variants 22
Effect Weight Type NR
PGS Source
PGS Catalog Publication (PGP) ID PGP000101
Citation (link to publication) Zhang Q et al. Nat Commun (2020)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 80.9%
Not Reported: 19.1%
388,324 individuals (100%)
PGS Evaluation
European: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST005922
Europe PMC: 29777097
 314,278 individuals European IGAP, UKB
GWAS Catalog: GCST005922
Europe PMC: 29777097
 74,046 individuals NR IGAP, UKB

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
PPM000901 PSS000449|
European Ancestry|
3,810 individuals
 PGP000101 |
Zhang Q et al. Nat Commun (2020)
 Reported Trait: Late-onset Alzheimer’s disease — — R²: 0.191 [0.131, 0.269] — R2 = variance explained on the liability scale

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
PSS000449 — —
[
  • 216 cases
  • , 631 controls
]
,
54.7 % Male samples
 Mean (Cases) = 77.6 years
Sd (Cases) = 7.6 years		 European — ABIL —
PSS000449 — —
[
  • 77 cases
  • , 588 controls
]
,
44.4 % Male samples
 Mean (Cases) = 86.8 years
Sd (Cases) = 4.6 years		 European — MAS —
PSS000449 — —
[
  • 383 cases
  • , 1,915 controls
]
,
47.0 % Male samples
 Mean (Cases) = 64.4 years
Sd (Cases) = 4.5 years		 European — UKB —