Predicted Trait | |
Reported Trait | Impedance of arm (L) |
Mapped Trait(s) | body composition measurement (EFO_0005106) |
Additional Trait Information | http://ipgs.mit.edu/tanigawakellis2023/INI23110 |
Score Construction | |
PGS Name | INI23110 |
Development Method | |
Name | snpnet |
Parameters | inclusive PGS |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 36,052 |
Effect Weight Type | beta |
PGS Source | |
PGS Catalog Publication (PGP) ID | PGP000502 |
Citation (link to publication) | Tanigawa Y et al. AJHG (2023) |
Ancestry Distribution | |
Score Development/Training | |
PGS Evaluation |
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 |
---|---|---|---|---|---|---|---|---|
— | 319,947 individuals | European, South Asian, African unspecified, Other admixed ancestry | UKB | — | — | — | European, South Asian, African unspecified, Other admixed ancestry | — |
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 |
---|---|---|---|---|---|---|---|---|
PPM018859 | PSS011151| European Ancestry| 66,613 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Impedance of arm (left) | — | — | R²: 0.5866 [0.58183, 0.59137] PGS R2 (no covariates): 0.0592 [0.05575, 0.06264] Incremental R2 (full-covars): 0.05807 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM018860 | PSS011105| European Ancestry| 2,837 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Impedance of arm (left) | — | — | R²: 0.58205 [0.55884, 0.60526] PGS R2 (no covariates): 0.05843 [0.04186, 0.07499] Incremental R2 (full-covars): 0.05408 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM018861 | PSS011118| South Asian Ancestry| 1,457 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Impedance of arm (left) | — | — | R²: 0.52117 [0.48611, 0.55622] PGS R2 (no covariates): 0.04856 [0.0273, 0.06983] Incremental R2 (full-covars): 0.04761 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM018862 | PSS011158| African Ancestry| 1,169 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Impedance of arm (left) | — | — | R²: 0.39016 [0.34741, 0.43291] PGS R2 (no covariates): 0.02085 [0.00498, 0.03672] Incremental R2 (full-covars): 0.0167 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM018863 | PSS011177| Multi-ancestry (excluding European)| 7,841 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Impedance of arm (left) | — | — | R²: 0.57525 [0.56114, 0.58935] PGS R2 (no covariates): 0.04258 [0.03393, 0.05123] Incremental R2 (full-covars): 0.04258 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
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 |
---|---|---|---|---|---|---|---|---|
PSS011177 | — | — | 7,841 individuals | — | East Asian, Other admixed ancestry | East Asian, Other admixed ancestry | UKB | — |
PSS011118 | — | — | 1,457 individuals | — | South Asian | — | UKB | — |
PSS011151 | — | — | 66,613 individuals | — | European (white British ancestry) |
— | UKB | — |
PSS011158 | — | — | 1,169 individuals | — | African unspecified | — | UKB | — |
PSS011105 | — | — | 2,837 individuals | — | European (non-white British ancestry) |
— | UKB | — |