Predicted Trait | |
Reported Trait | Impedance of leg (L) |
Mapped Trait(s) | body composition measurement (EFO_0005106) |
Additional Trait Information | http://ipgs.mit.edu/tanigawakellis2023/INI23108 |
Score Construction | |
PGS Name | INI23108 |
Development Method | |
Name | snpnet |
Parameters | inclusive PGS |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 36,063 |
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 |
---|---|---|---|---|---|---|---|---|
— | 319,951 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 |
---|---|---|---|---|---|---|---|---|
PPM018849 | PSS011151| European Ancestry| 66,613 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Impedance of leg (left) | — | — | R²: 0.29131 [0.28554, 0.29707] PGS R2 (no covariates): 0.11128 [0.10682, 0.11575] Incremental R2 (full-covars): 0.1103 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM018850 | PSS011105| European Ancestry| 2,837 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Impedance of leg (left) | — | — | R²: 0.28648 [0.25868, 0.31427] PGS R2 (no covariates): 0.10226 [0.08137, 0.12316] Incremental R2 (full-covars): 0.10474 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM018851 | PSS011118| South Asian Ancestry| 1,457 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Impedance of leg (left) | — | — | R²: 0.19957 [0.1633, 0.23583] PGS R2 (no covariates): 0.08533 [0.05823, 0.11242] Incremental R2 (full-covars): 0.08283 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM018852 | PSS011158| African Ancestry| 1,169 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Impedance of leg (left) | — | — | R²: 0.07203 [0.04408, 0.09998] PGS R2 (no covariates): 0.02151 [0.0054, 0.03762] Incremental R2 (full-covars): 0.0219 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM018853 | PSS011177| Multi-ancestry (excluding European)| 7,841 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Impedance of leg (left) | — | — | R²: 0.27848 [0.26181, 0.29515] PGS R2 (no covariates): 0.08259 [0.07104, 0.09413] Incremental R2 (full-covars): 0.07424 |
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 | — |