Polygenic Score (PGS) ID: PGS000906

Predicted Trait
Reported Trait Longevity
Mapped Trait(s) life span determination trait (OBA_VT0005372)
Released in PGS Catalog: Sept. 17, 2021
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Score Details

Score Construction
PGS Name PRS-5
Development Method
Name Clumping and Thresholding (C+T)
Parameters R^2 < 0.001 within a 750kb region, p < 5e-5
Variants
Original Genome Build GRCh37
Number of Variants 330
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000237
Citation (link to publication) Tesi N et al. J Gerontol A Biol Sci Med Sci (2021)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
500,193 individuals (100%)
Score Development/Training
European: 100%
3,248 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: GCST009890
Europe PMC: 30642433
 500,193 individuals European LifeGen, UKB
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
—
[
  • 343 cases
  • , 2,905 controls
]
,
49.32 % Male samples
 European
(Dutch, NR)		 100-plus, LASA, NBB, NTR Cases are cognitively healthy centenarians. Controls are a sample of population-matched, older-adults drawn from 5 different studies. — — — —

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
PPM002679 PSS001184|
European Ancestry|
1,620 individuals
 PGP000237 |
Tesi N et al. J Gerontol A Biol Sci Med Sci (2021)
 Reported Trait: Survival HR: 0.89 [0.8, 0.98] — — Age at inclusion, gender, PCs(1-5), and APOE-ε4 carriership (dichotomized) Survival analysis performed in the control samples used to develop the PRS

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
PSS001184 — Mean = 10.4 years
Sd = 6.9 years		 1,620 individuals,
47.0 % Male samples
 Mean = 62.7 years
Sd = 6.4 years		 European
(Dutch, NR)		 — 100-plus, LASA, NBB, NTR This dataset overlaps fully with the controls used to develop the score