Predicted Trait | |
Reported Trait | Stroke |
Mapped Trait(s) | stroke (EFO_0000712) |
Score Construction | |
PGS Name | megaprs.CV.GCST005838.Stroke |
Development Method | |
Name | megaprs.CV |
Parameters | Model:Model195,Type:bayesr,Her_Scaling:1,Lasso_lambda:NA,Lasso_s:NA,Bolt_p:NA,Bolt_f2:NA,BayesR_p1:0.895,BayesR_p2:0.05,BayesR_p3:0.05,BayesR_p4:0.005 |
Variants | |
Original Genome Build | GRCh38 |
Number of Variants | 852,173 |
Effect Weight Type | beta |
PGS Source | |
PGS Catalog Publication (PGP) ID | PGP000517 |
Citation (link to publication) | Monti R et al. Am J Hum Genet (2024) |
Study Identifiers | Sample Numbers | Sample Ancestry | Cohort(s) |
---|---|---|---|
GWAS Catalog: GCST005838 Europe PMC: 29531354 |
45,564 individuals | East Asian | NR |
GWAS Catalog: GCST005838 Europe PMC: 29531354 |
698 individuals | Asian unspecified | NR |
GWAS Catalog: GCST005838 Europe PMC: 29531354 |
1,557 individuals | Hispanic or Latin American | NR |
GWAS Catalog: GCST005838 Europe PMC: 29531354 |
9,144 individuals | South Asian | NR |
GWAS Catalog: GCST005838 Europe PMC: 29531354 |
20,695 individuals | African American or Afro-Caribbean | NR |
GWAS Catalog: GCST005838 Europe PMC: 29531354 |
446,696 individuals | European | NR |
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 |
---|---|---|---|---|---|---|---|---|
— | 8,142 individuals | European | UKB | — | — | — | — | — |
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 |
---|---|---|---|---|---|---|---|---|
PPM019479 | PSS011223| European Ancestry| 48,148 individuals |
PGP000517 | Monti R et al. Am J Hum Genet (2024) |
Reported Trait: Stroke excluding subarachnoid hemorrhage | OR: 1.12262 [1.08997461, 1.15624017] β: 0.11566 [0.0861544, 0.1451735] |
AUROC: 0.53342 [0.52488642, 0.54195793] | R²: 0.00277 [0.00147025, 0.00431716] | 0 | beta = log(or)/sd_pgs |
PPM019480 | PSS011234| European Ancestry| 376,733 individuals |
PGP000517 | Monti R et al. Am J Hum Genet (2024) |
Reported Trait: Stroke excluding subarachnoid hemorrhage | OR: 1.17236 [1.15771305, 1.18719934] β: 0.15902 [0.14644655, 0.17159704] |
AUROC: 0.54524 [0.54162844, 0.54884559] | R²: 0.00523 [0.00440696, 0.00610806] | 0 | beta = log(or)/sd_pgs |
PPM019481 | PSS011247| South Asian Ancestry| 44,057 individuals |
PGP000517 | Monti R et al. Am J Hum Genet (2024) |
Reported Trait: Stroke excluding subarachnoid hemorrhage | OR: 1.09524 [0.99518242, 1.20534758] β: 0.09097 [-0.0048292, 0.18676797] |
AUROC: 0.52535 [0.49869346, 0.55200012] | R²: 0.00128 [0.00000209, 0.00487633] | 0 | beta = log(or)/sd_pgs |
PPM019482 | PSS011263| European Ancestry| 66,865 individuals |
PGP000517 | Monti R et al. Am J Hum Genet (2024) |
Reported Trait: Stroke excluding subarachnoid hemorrhage | OR: 1.14508 [1.11308982, 1.17799207] β: 0.13548 [0.10713977, 0.16381135] |
AUROC: 0.53866 [0.53061568, 0.54669435] | R²: 0.00379 [0.00230863, 0.00554488] | 0 | beta = log(or)/sd_pgs |
PPM019483 | PSS011290| South Asian Ancestry| 9,326 individuals |
PGP000517 | Monti R et al. Am J Hum Genet (2024) |
Reported Trait: Stroke excluding subarachnoid hemorrhage | OR: 1.24252 [1.08479041, 1.42318679] β: 0.21714 [0.08138679, 0.35289857] |
AUROC: 0.56986 [0.53098801, 0.60872389] | R²: 0.00738 [0.000997, 0.02006623] | 0 | beta = log(or)/sd_pgs |
PPM019484 | PSS011276| European Ancestry| 90,274 individuals |
PGP000517 | Monti R et al. Am J Hum Genet (2024) |
Reported Trait: Stroke excluding subarachnoid hemorrhage | OR: 1.22477 [1.1719543, 1.27996152] β: 0.20275 [0.1586727, 0.24683001] |
AUROC: 0.55628 [0.54365516, 0.56889903] | R²: 0.00845 [0.0051498, 0.01257724] | 0 | beta = log(or)/sd_pgs |
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 |
---|---|---|---|---|---|---|---|---|
PSS011276 | — | — | [
|
— | European | — | UKB | — |
PSS011247 | — | — | [
|
— | South Asian | — | G&H | — |
PSS011223 | — | — | [
|
— | European | — | EB | — |
PSS011290 | — | — | [
|
— | South Asian | — | UKB | — |
PSS011263 | — | — | [
|
— | European | — | HUNT | — |
PSS011234 | I9_STR, ICD10: I61 | I63 | I64 (exclude I636), ICD9:431|4330A|4331A|4339A|4340A|4341A|4349A|436 | — | [
|
— | European | — | FinnGen | — |