Predicted Trait | |
Reported Trait | Whole body water mass |
Mapped Trait(s) | whole body water mass (EFO_0009805) |
Additional Trait Information | http://ipgs.mit.edu/tanigawakellis2023/INI23102 |
Score Construction | |
PGS Name | INI23102 |
Development Method | |
Name | snpnet |
Parameters | inclusive PGS |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 43,166 |
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 |
---|---|---|---|---|---|---|---|---|
— | 319,969 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 |
---|---|---|---|---|---|---|---|---|
PPM018829 | PSS011120| European Ancestry| 66,617 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Whole body water mass | — | — | R²: 0.76001 [0.75686, 0.76316] PGS R2 (no covariates): 0.0537 [0.0504, 0.057] Incremental R2 (full-covars): 0.0541 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM018830 | PSS011105| European Ancestry| 2,837 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Whole body water mass | — | — | R²: 0.75815 [0.74282, 0.77347] PGS R2 (no covariates): 0.0659 [0.04845, 0.08335] Incremental R2 (full-covars): 0.05792 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM018831 | PSS011118| South Asian Ancestry| 1,457 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Whole body water mass | — | — | R²: 0.69263 [0.66668, 0.71857] PGS R2 (no covariates): 0.02973 [0.01276, 0.04669] Incremental R2 (full-covars): 0.04434 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM018832 | PSS011158| African Ancestry| 1,169 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Whole body water mass | — | — | R²: 0.58375 [0.54806, 0.61944] PGS R2 (no covariates): 0.00794 [-0.00198, 0.01785] Incremental R2 (full-covars): 0.00256 |
age, sex, age^2, age*sex, Townsend deprivation index, genotype PCs (PC1-PC18) | — |
PPM018833 | PSS011176| Multi-ancestry (excluding European)| 7,842 individuals |
PGP000502 | Tanigawa Y et al. AJHG (2023) |
Reported Trait: Whole body water mass | — | — | R²: 0.74875 [0.73923, 0.75827] PGS R2 (no covariates): 0.03942 [0.03107, 0.04777] Incremental R2 (full-covars): 0.0395 |
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 |
---|---|---|---|---|---|---|---|---|
PSS011176 | — | — | 7,842 individuals | — | East Asian, Other admixed ancestry | East Asian, Other admixed ancestry | UKB | — |
PSS011118 | — | — | 1,457 individuals | — | South Asian | — | UKB | — |
PSS011120 | — | — | 66,617 individuals | — | European (white British ancestry) |
— | UKB | — |
PSS011158 | — | — | 1,169 individuals | — | African unspecified | — | UKB | — |
PSS011105 | — | — | 2,837 individuals | — | European (non-white British ancestry) |
— | UKB | — |