Predicted Trait | |
Reported Trait | Impedance of whole body |
Mapped Trait(s) | body composition measurement (EFO_0005106) |
Additional Trait Information | http://ipgs.mit.edu/tanigawakellis2023/INI23106 |
Score Construction | |
PGS Name | INI23106 |
Development Method | |
Name | snpnet |
Parameters | inclusive PGS |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 42,265 |
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 |
---|---|---|---|---|---|---|---|---|
— | 319,938 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 |
---|---|---|---|---|---|---|---|---|
PPM018839 | PSS011124| European Ancestry| 66,607 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Impedance of whole body | — | — | R²: 0.52234 [0.51714, 0.52754] PGS R2 (no covariates): 0.08468 [0.08067, 0.08869] Incremental R2 (full-covars): 0.08345 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM018840 | PSS011105| European Ancestry| 2,837 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Impedance of whole body | — | — | R²: 0.50682 [0.48127, 0.53237] PGS R2 (no covariates): 0.08188 [0.06276, 0.101] Incremental R2 (full-covars): 0.08098 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM018842 | PSS011158| African Ancestry| 1,169 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Impedance of whole body | — | — | R²: 0.27918 [0.23643, 0.32192] PGS R2 (no covariates): 0.02692 [0.009, 0.04483] Incremental R2 (full-covars): 0.02486 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM018843 | PSS011162| Multi-ancestry (excluding European)| 7,839 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Impedance of whole body | — | — | R²: 0.49232 [0.47672, 0.50792] PGS R2 (no covariates): 0.05296 [0.04342, 0.06251] Incremental R2 (full-covars): 0.051 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM018841 | PSS011118| South Asian Ancestry| 1,457 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Impedance of whole body | — | — | R²: 0.41749 [0.37932, 0.45566] PGS R2 (no covariates): 0.05569 [0.03309, 0.07829] Incremental R2 (full-covars): 0.05788 |
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 |
---|---|---|---|---|---|---|---|---|
PSS011118 | — | — | 1,457 individuals | — | South Asian | — | UKB | — |
PSS011124 | — | — | 66,607 individuals | — | European (white British ancestry) |
— | UKB | — |
PSS011158 | — | — | 1,169 individuals | — | African unspecified | — | UKB | — |
PSS011162 | — | — | 7,839 individuals | — | East Asian, Other admixed ancestry | East Asian, Other admixed ancestry | UKB | — |
PSS011105 | — | — | 2,837 individuals | — | European (non-white British ancestry) |
— | UKB | — |