Polygenic Score (PGS) ID: PGS004881

Predicted Trait
Reported Trait Epilepsy
Mapped Trait(s) epilepsy (EFO_0000474)
Released in PGS Catalog: June 27, 2024
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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 INTERVENE_MegaPRS_Epilepsy
Development Method
Name megaprs.auto
Parameters BayesR, p1=0.985, p2=0.005, p3=0.005, p4=0.005
Variants
Original Genome Build GRCh37
Number of Variants 605,432
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000618
Citation (link to publication) Jermy B et al. Nat Commun (2024)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 86.3%
East Asian: 7.6%
African: 6.1%
44,889 individuals (100%)
Score Development/Training
European: 100%
404 individuals (100%)
PGS Evaluation
European: 100%
8 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST007343
Europe PMC: 30531953
 38,752 individuals European NR
GWAS Catalog: GCST007343
Europe PMC: 30531953
 3,406 individuals East Asian NR
GWAS Catalog: GCST007343
Europe PMC: 30531953
 2,731 individuals African American or Afro-Caribbean NR
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
— 404 individuals European 1000G — — — non-Finnish Europeans —

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
PPM021223 PSS011665|
European Ancestry|
447,332 individuals
 PGP000618 |
Jermy B et al. Nat Commun (2024)
 Reported Trait: Incident Epilepsy HR: 1.12 [1.09, 1.14] — — PCs 1-10 —
PPM021224 PSS011580|
European Ancestry|
20,188 individuals
 PGP000618 |
Jermy B et al. Nat Commun (2024)
 Reported Trait: Incident Epilepsy HR: 1.07 [1.02, 1.11] C-index: 0.54 [0.53, 0.55] — PCs 1-10 —
PPM021225 PSS011579|
European Ancestry|
69,715 individuals
 PGP000618 |
Jermy B et al. Nat Commun (2024)
 Reported Trait: Incident Epilepsy HR: 1.1 [1.05, 1.16] C-index: 0.55 [0.54, 0.57] — PCs 1-10 —
PPM021226 PSS011578|
European Ancestry|
29,427 individuals
 PGP000618 |
Jermy B et al. Nat Commun (2024)
 Reported Trait: Incident Epilepsy HR: 1.1 [1.02, 1.19] C-index: 0.54 [0.52, 0.56] — PCs 1-10 —
PPM021227 PSS011576|
European Ancestry|
44,188 individuals
 PGP000618 |
Jermy B et al. Nat Commun (2024)
 Reported Trait: Incident Epilepsy HR: 1.17 [1.04, 1.32] — — PCs 1-10 —
PPM021228 PSS011577|
European Ancestry|
7,018 individuals
 PGP000618 |
Jermy B et al. Nat Commun (2024)
 Reported Trait: Incident Epilepsy HR: 0.98 [0.86, 1.13] C-index: 0.59 [0.55, 0.63] — PCs 1-10 —
PPM021230 PSS011574|
European Ancestry|
199,868 individuals
 PGP000618 |
Jermy B et al. Nat Commun (2024)
 Reported Trait: Incident Epilepsy HR: 1.11 [1.08, 1.14] C-index: 0.55 [0.54, 0.56] — PCs 1-10 —
PPM021229 PSS011575|
European Ancestry|
412,090 individuals
 PGP000618 |
Jermy B et al. Nat Commun (2024)
 Reported Trait: Incident Epilepsy HR: 1.11 [1.09, 1.13] C-index: 0.55 [0.55, 0.56] — PCs 1-10 —

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
PSS011665 — —
[
  • 5,886 cases
  • , 441,446 controls
]
 — European — UKB —
PSS011574 — —
[
  • 4,887 cases
  • , 194,981 controls
]
 — European — EB —
PSS011575 — —
[
  • 12,248 cases
  • , 399,842 controls
]
 — European — FinnGen —
PSS011576 — —
[
  • 297 cases
  • , 43,891 controls
]
 — European — G&H —
PSS011577 — —
[
  • 200 cases
  • , 6,818 controls
]
 — European — GS:SFHS —
PSS011578 — —
[
  • 750 cases
  • , 28,677 controls
]
 — European — GEL —
PSS011579 — —
[
  • 1,523 cases
  • , 68,192 controls
]
 — European — HUNT —
PSS011580 — —
[
  • 2,388 cases
  • , 17,800 controls
]
 — European — MGBB —