Polygenic Score (PGS) ID: PGS000054

Predicted Trait
Reported Trait Alzheimer's disease (late onset)
Mapped Trait(s) late-onset Alzheimer's disease (EFO_1001870)
Released in PGS Catalog: Dec. 18, 2019
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Score Details

Score Construction
PGS Name ALZ21_EFIGA
Development Method
Name Genome-wide significant variants
Parameters P<5x10e-8 in discovery samples
Variants
Original Genome Build GRCh37
Number of Variants 21
Effect Weight Type NR
PGS Source
PGS Catalog Publication (PGP) ID PGP000039
Citation (link to publication) Tosto G et al. Neurology (2017)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
55,134 individuals (100%)
PGS Evaluation
Hispanic or Latin American: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST002245
Europe PMC: 24162737
 55,134 individuals European 19 cohorts
  • ACT
  • ,ADC
  • ,ADNI
  • ,AGES
  • ,CHS
  • ,EADI
  • ,FHS
  • ,GERAD
  • ,GSK
  • ,LOAD
  • ,MAYO
  • ,MIRAGE
  • ,OHSU
  • ,ROSMAP
  • ,RS
  • ,TGEN
  • ,UMVUMSS
  • ,UPITT
  • ,WASHU

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
PPM000138 PSS000084|
Hispanic or Latin American Ancestry|
3,324 individuals
 PGP000039 |
Tosto G et al. Neurology (2017)
 Reported Trait: Alzheimer's disease (age-at-onset) β: -0.86 (0.15) years — — — —
PPM000135 PSS000084|
Hispanic or Latin American Ancestry|
3,324 individuals
 PGP000039 |
Tosto G et al. Neurology (2017)
 Reported Trait: Familial late-onset Alzheimer's disease (LOAD) OR: 1.73 [1.57, 1.93] — — Age, sex —
PPM000136 PSS000084|
Hispanic or Latin American Ancestry|
3,324 individuals
 PGP000039 |
Tosto G et al. Neurology (2017)
 Reported Trait: Familial late-onset Alzheimer's disease (LOAD) OR: 1.71 [1.55, 1.9] — — Age, sex, APOE e4 —

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
PSS000084 EFIGA recruited patients from families multiply affected by LOAD, but of Caribbean Hispanic ancestry from the Dominican Republic and New York. Families were recruited after confirming diagnoses in the probands. Family members with dementia were also interviewed and neurologically evaluated. Clinical diagnoses were made in a consensus diagnostic conference by a panel of neurologists, neuropsychologists, and psychiatrists. Detailed description is available elsewhere.14 For these family-based studies, we included data from families for which their members (1) were 60 years or older at the time of enrollment; (2) had a diagnosis of probable or possible LOAD according to National Institute of Neurological and Communicative Disorders and Stroke–Alzheimer’s Disease and Related Disorders Association (NINDS-ADRDA) criteria; (3) had available pedigree information and covariates. —
[
  • 2,155 cases
  • , 1,169 controls
]
,
34.0 % Male samples
 — Hispanic or Latin American Samples are described as "Carribbean Hispanic" EFIGA —