Predicted Trait | |
Reported Trait | Impedance of arm (R) |
Mapped Trait(s) | body composition measurement (EFO_0005106) |
Additional Trait Information | http://ipgs.mit.edu/tanigawakellis2023/INI23109 |
Score Construction | |
PGS Name | INI23109 |
Development Method | |
Name | snpnet |
Parameters | inclusive PGS |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 35,455 |
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 |
---|---|---|---|---|---|---|---|---|
— | 319,935 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 |
---|---|---|---|---|---|---|---|---|
PPM018854 | PSS011122| European Ancestry| 66,610 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Impedance of arm (right) | — | — | R²: 0.57729 [0.57246, 0.58213] PGS R2 (no covariates): 0.05608 [0.05271, 0.05945] Incremental R2 (full-covars): 0.05556 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM018855 | PSS011105| European Ancestry| 2,837 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Impedance of arm (right) | — | — | R²: 0.58628 [0.56322, 0.60933] PGS R2 (no covariates): 0.05833 [0.04177, 0.07488] Incremental R2 (full-covars): 0.05518 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM018856 | PSS011118| South Asian Ancestry| 1,457 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Impedance of arm (right) | — | — | R²: 0.52227 [0.48726, 0.55729] PGS R2 (no covariates): 0.03782 [0.01884, 0.0568] Incremental R2 (full-covars): 0.04181 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM018857 | PSS011158| African Ancestry| 1,169 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Impedance of arm (right) | — | — | R²: 0.36871 [0.32569, 0.41173] Incremental R2 (full-covars): 0.01718 PGS R2 (no covariates): 0.02183 [0.00561, 0.03804] |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM018858 | PSS011162| Multi-ancestry (excluding European)| 7,839 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Impedance of arm (right) | — | — | R²: 0.57591 [0.56182, 0.59] PGS R2 (no covariates): 0.04377 [0.03501, 0.05253] Incremental R2 (full-covars): 0.0406 |
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 | — |
PSS011122 | — | — | 66,610 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 | — |