Polygenic Score (PGS) ID: PGS000334

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

Score Construction
PGS Name GRSfull_22
Variants
Original Genome Build GRCh37
Number of Variants 22
Development Method
Name Clumping + Thresholding
Parameters p < 1e-8; r2 threshold = 0.01; HapMap3 SNPs (MAF > 0.01)
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
GWAS Catalog: GCST005922
Europe PMC: 29777097
314,278 individuals European
GWAS Catalog: GCST005922
Europe PMC: 29777097
74,046 individuals 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
PPM000901 PSS000449|
European Ancestry|
3,810 individuals
PGP000101 |
Zhang Q et al. Nat Commun (2020)
Reported Trait: Late-onset Alzheimer’s disease : 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