| Predicted Trait | |
| Reported Trait | LDL cholesterol |
| Mapped Trait(s) | low density lipoprotein cholesterol measurement (EFO_0004611) |
| Additional Trait Information | Phenotype defined in GLGC. Please refer the paper for more details. |
| Score Construction | |
| PGS Name | LDL_SAS_weighted_ldpred2 |
| Development Method | |
| Name | weighted_ldpred2 |
| Parameters | Linearly combines the corresponding single-ancestry ldpred2 trained from all five populations AFR, A... MR, EAS, EUR, and SAS. Weights are estimated using individual data from the target population.Show more |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 1,879,609 |
| Effect Weight Type | beta |
| PGS Source | |
| PGS Catalog Publication (PGP) ID | PGP000595 |
| Citation (link to publication) | Zhang J et al. Nat Commun (2024) |
| Ancestry Distribution | |
| Source of Variant Associations (GWAS) | |
| Score Development/Training | South Asian: 100% 5,139 individuals (100%) |
| PGS Evaluation | South Asian: 100% 1 Sample Sets |
Study Identifiers
|
Sample Numbers
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Sample Ancestry
|
Cohort(s)
|
|---|---|---|---|
Europe PMC: 34887591 | 1,092,705 individuals | European, African American or Afro-Caribbean, Hispanic or Latin American, East Asian, South Asian | GLGC |
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
|
|---|---|---|---|---|---|---|---|---|
| — | 5,139 individuals, 53.0 % Male samples | South Asian | UKB | — | Mean = 53.37 years Sd = 8.43 years | — | — | — |
PGS Performance Metric ID (PPM) |
PGS Sample Set ID (PSS) |
Performance Source
|
Trait
|
PGS Effect Sizes (per SD change) |
Classification Metrics
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Other Metrics
|
Covariates Included in the Model
|
PGS Performance: Other Relevant Information |
|---|---|---|---|---|---|---|---|---|
| PPM020836 | PSS011428| South Asian Ancestry| 5,137 individuals | PGP000595 | Zhang J et al. Nat Commun (2024) | Reported Trait: LDL cholesterol | — | — | adjusted R2: 0.0513 | — | — |
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
|
|---|---|---|---|---|---|---|---|---|
| PSS011428 | — | — | 5,137 individuals, 53.0 % Male samples | Mean = 53.37 years Sd = 8.43 years | South Asian | — | UKB | — |