Predicted Trait | |
Reported Trait | Total cholesterol |
Mapped Trait(s) | total cholesterol measurement (EFO_0004574) |
Score Construction | |
PGS Name | TC_SAS_LDpred2 |
Development Method | |
Name | LDpred2 |
Parameters | causal SNPs protions vary with length 17 that are evened spaced on a logorithmic sale from 1E-04 to 1 |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 1,468,958 |
Effect Weight Type | beta |
PGS Source | |
PGS Catalog Publication (PGP) ID | PGP000489 |
Citation (link to publication) | Zhang H et al. Nat Genet (2023) |
Study Identifiers | Sample Numbers | Sample Ancestry | Cohort(s) |
---|---|---|---|
Europe PMC: 34887591 |
34,135 individuals | South Asian | 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 |
---|---|---|---|---|---|---|---|---|
— | 5,147 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 | Other Metrics | Covariates Included in the Model |
PGS Performance: Other Relevant Information |
---|---|---|---|---|---|---|---|---|
PPM018638 | PSS011050| South Asian Ancestry| 5,153 individuals |
PGP000489 | Zhang H et al. Nat Genet (2023) |
Reported Trait: Total cholesterol | — | — | R²: 0.02349 | — | — |
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 |
---|---|---|---|---|---|---|---|---|
PSS011050 | — | — | 5,153 individuals, 53.0 % Male samples |
Mean = 53.37 years Sd = 8.43 years |
South Asian | — | UKB | — |