Polygenic Score (PGS) ID: PGS001828

Predicted Trait
Reported Trait Alzheimer's disease
Mapped Trait(s) Alzheimer disease (MONDO_0004975)
Additional Trait Information psychiatric disorders
Released in PGS Catalog: Jan. 10, 2022
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 portability-PLR_290.11
Development Method
Name Penalized regression (bigstatsr)
Parameters HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 38
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000263
Citation (link to publication) Privé F et al. Am J Hum Genet (2022)
Ancestry Distribution
Score Development/Training
European: 100%
391,124 individuals (100%)
PGS Evaluation
European: 37.5%
African: 25%
East Asian: 12.5%
Greater Middle Eastern: 12.5%
South Asian: 12.5%
8 Sample Sets

Development Samples

Score Development/Training
Study Identifiers Sample Numbers Sample Ancestry Cohort(s) Phenotype Definitions & Methods Age of Study Participants Participant Follow-up Time Additional Ancestry Description Additional Sample/Cohort Information
— 391,124 individuals European UKB — — — UK (+ Ireland) —

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
PPM009517 PSS009298|
European Ancestry|
19,563 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Alzheimer's disease — — Partial Correlation (partial-r): 0.0482 [0.0342, 0.0622] sex, age, birth date, deprivation index, 16 PCs —
PPM009519 PSS008626|
European Ancestry|
6,544 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Alzheimer's disease — — Partial Correlation (partial-r): 0.0354 [0.0111, 0.0596] sex, age, birth date, deprivation index, 16 PCs —
PPM009520 PSS008400|
Greater Middle Eastern Ancestry|
1,183 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Alzheimer's disease — — Partial Correlation (partial-r): 0.0684 [0.011, 0.1254] sex, age, birth date, deprivation index, 16 PCs —
PPM009521 PSS008180|
South Asian Ancestry|
6,205 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Alzheimer's disease — — Partial Correlation (partial-r): 0.0283 [0.0034, 0.0532] sex, age, birth date, deprivation index, 16 PCs —
PPM009522 PSS007965|
East Asian Ancestry|
1,802 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Alzheimer's disease — — Partial Correlation (partial-r): 0.045 [-0.0015, 0.0912] sex, age, birth date, deprivation index, 16 PCs —
PPM009523 PSS007746|
African Ancestry|
2,429 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Alzheimer's disease — — Partial Correlation (partial-r): 0.0414 [0.0015, 0.0812] sex, age, birth date, deprivation index, 16 PCs —
PPM009524 PSS008850|
African Ancestry|
3,836 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Alzheimer's disease — — Partial Correlation (partial-r): 0.0338 [0.002, 0.0654] sex, age, birth date, deprivation index, 16 PCs —
PPM009518 PSS009072|
European Ancestry|
4,062 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Alzheimer's disease — — Partial Correlation (partial-r): -0.0098 [-0.0406, 0.021] sex, age, birth date, deprivation index, 16 PCs —

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
PSS008400 — — 1,183 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS009072 — — 4,062 individuals — European Poland (NE Europe) UKB —
PSS008626 — — 6,544 individuals — European Italy (South Europe) UKB —
PSS009298 — — 19,563 individuals — European UK (+ Ireland) UKB —
PSS008180 — — 6,205 individuals — South Asian India (South Asia) UKB —
PSS008850 — — 3,836 individuals — African unspecified Nigeria (West Africa) UKB —
PSS007965 — — 1,802 individuals — East Asian China (East Asia) UKB —
PSS007746 — — 2,429 individuals — African American or Afro-Caribbean Carribean UKB —