| Predicted Trait | |
| Reported Trait | LDL cholesterol |
| Mapped Trait(s) | low density lipoprotein cholesterol measurement (EFO_0004611) |
| Score Construction | |
| PGS Name | GLGC_2021_AFR_LDL_PRS_weights_PT |
| Development Method | |
| Name | Pruning and Thresholding (P+T) |
| Parameters | r2=0.1 distance=250kb p=5e-9 |
| Variants | |
| Original Genome Build | hg19 |
| Number of Variants | 295 |
| Effect Weight Type | beta |
| PGS Source | |
| PGS Catalog Publication (PGP) ID | PGP000230 |
| Citation (link to publication) | Graham SE et al. Nature (2021) |
Study Identifiers
|
Sample Numbers
|
Sample Ancestry
|
Cohort(s)
|
|---|---|---|---|
GWAS Catalog: GLGC2021 | 87,760 individuals | African unspecified | NR |
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 |
|---|---|---|---|---|---|---|---|---|
| PPM002543 | PSS001144| African Ancestry| 4,273 individuals | PGP000230 | Graham SE et al. Nature (2021) | Reported Trait: Baseline LDL cholesterol | — | — | R²: 0.118 | age, sex, PC1-3 | — |
| PPM002544 | PSS001145| African Ancestry| 707 individuals | PGP000230 | Graham SE et al. Nature (2021) | Reported Trait: Baseline LDL cholesterol | — | — | R²: 0.101 | age, sex, PC1-3 | — |
| PPM002545 | PSS001146| African Ancestry| 3,566 individuals | PGP000230 | Graham SE et al. Nature (2021) | Reported Trait: Baseline LDL cholesterol | — | — | R²: 0.125 | age, sex, PC1-3 | — |
| PPM002554 | PSS001148| African Ancestry| 1,745 individuals | PGP000230 | Graham SE et al. Nature (2021) | Reported Trait: Baseline LDL cholesterol | — | — | R²: 0.085 | age, sex, PC1-6 | — |
| PPM002557 | PSS001149| African Ancestry| 4,972 individuals | PGP000230 | Graham SE et al. Nature (2021) | Reported Trait: Baseline LDL cholesterol | — | — | R²: 0.128 | age, sex, PC1-6 | — |
| PPM002560 | PSS001150| African Ancestry| 3,743 individuals | PGP000230 | Graham SE et al. Nature (2021) | Reported Trait: Baseline LDL cholesterol | — | — | R²: 0.076 | age, sex, and PC1-4 | — |
| PPM002563 | PSS001151| South Asian Ancestry| 15,242 individuals | PGP000230 | Graham SE et al. Nature (2021) | Reported Trait: Max LDL cholesterol | — | — | R²: 0.069 | age, sex, and PC1-10 | — |
| PPM002568 | PSS001152| East Asian Ancestry| 118,260 individuals | PGP000230 | Graham SE et al. Nature (2021) | Reported Trait: Baseline LDL cholesterol | — | — | R²: 0.051 | age, sex, and recruitment area | — |
| PPM002574 | PSS001153| African Ancestry| 1,341 individuals | PGP000230 | Graham SE et al. Nature (2021) | Reported Trait: Mean LDL cholesterol | — | — | R²: 0.115 | sex, batch, PC1-4, and birth year | — |
| PPM002575 | PSS001154| European Ancestry| 17,190 individuals | PGP000230 | Graham SE et al. Nature (2021) | Reported Trait: Mean LDL cholesterol | — | — | R²: 0.074 | sex, batch, PC1-4, and birth year | — |
| PPM002584 | PSS001156| African Ancestry| 18,251 individuals | PGP000230 | Graham SE et al. Nature (2021) | Reported Trait: Mean LDL cholesterol | — | — | R²: 0.148 | sex, PC1-4, birth year, and mean age | — |
| PPM002585 | PSS001157| Additional Asian Ancestries| 4,155 individuals | PGP000230 | Graham SE et al. Nature (2021) | Reported Trait: Mean LDL cholesterol | — | — | R²: 0.063 | sex, PC1-4, birth year, and mean age | — |
| PPM002586 | PSS001158| European Ancestry| 68,381 individuals | PGP000230 | Graham SE et al. Nature (2021) | Reported Trait: Mean LDL cholesterol | — | — | R²: 0.103 | sex, PC1-4, birth year, and mean age | — |
| PPM002587 | PSS001159| Hispanic or Latin American Ancestry| 7,669 individuals | PGP000230 | Graham SE et al. Nature (2021) | Reported Trait: Mean LDL cholesterol | — | — | R²: 0.071 | sex, PC1-4, birth year, and mean age | — |
| PPM002616 | PSS001160| African Ancestry| 2,138 individuals | PGP000230 | Graham SE et al. Nature (2021) | Reported Trait: Mean LDL cholesterol | — | — | R²: 0.129 | birth year, sex, and PC1-4 | — |
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
|
|---|---|---|---|---|---|---|---|---|
| PSS001144 | — | — | 4,273 individuals | — | African unspecified | — | AADM | — |
| PSS001145 | — | — | 707 individuals | — | African unspecified | — | AADM | — |
| PSS001146 | — | — | 3,566 individuals | — | African unspecified | — | AADM | — |
| PSS001148 | — | — | 1,745 individuals | — | African unspecified | — | AWI-Gen | — |
| PSS001149 | — | — | 4,972 individuals | — | Sub-Saharan African | — | AWI-Gen | — |
| PSS001150 | — | — | 3,743 individuals | — | African unspecified | — | AWI-Gen | — |
| PSS001151 | — | — | 15,242 individuals | — | South Asian | — | G&H | — |
| PSS001152 | — | — | 118,260 individuals | — | East Asian | — | KoGES | — |
| PSS001153 | — | — | 1,341 individuals | — | African American or Afro-Caribbean | — | MGI | — |
| PSS001154 | — | — | 17,190 individuals | — | European | — | MGI | — |
| PSS001156 | — | — | 18,251 individuals | — | African American or Afro-Caribbean | — | MVP | Subset not used in discovery dataset |
| PSS001157 | — | — | 4,155 individuals | — | Asian unspecified | — | MVP | Subset not used in discovery dataset |
| PSS001158 | — | — | 68,381 individuals | — | European | — | MVP | Subset not used in discovery dataset |
| PSS001159 | — | — | 7,669 individuals | — | Hispanic or Latin American | — | MVP | Subset not used in discovery dataset |
| PSS001160 | — | — | 2,138 individuals | — | African American or Afro-Caribbean | — | PMB | — |