| Experimental Factor Ontology (EFO) Information | |
| Identifier | EFO_0009282 |
| Description | A quantitative measurement of the amount of sodium present in a sample. |
| Trait category |
Other measurement
|
| Synonyms |
2 synonyms
|
| Mapped term | PMID:29403010 |
Polygenic Score ID & Name
|
PGS Publication ID (PGP)
|
Reported Trait
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Mapped Trait(s) (Ontology)
|
Number of Variants
|
Ancestry distribution GWAS Dev Eval |
Scoring File (FTP Link)
|
|---|---|---|---|---|---|---|
| PGS000695 (snpnet.Sodium_in_urine) | PGP000128 | Sinnott-Armstrong N et al. Nat Genet (2021) | Sodium in urine [mmol/L] | urinary metabolite measurement, sodium measurement | 5,833 | - | https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000695/ScoringFiles/PGS000695.txt.gz |
| PGS002007 (portability-PLR_sodium_urine) | PGP000263 | Privé F et al. Am J Hum Genet (2022) | Sodium in urine | sodium measurement | 37,568 | - | https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002007/ScoringFiles/PGS002007.txt.gz |
| PGS002226 (portability-ldpred2_sodium_urine) | PGP000263 | Privé F et al. Am J Hum Genet (2022) | Sodium in urine | sodium measurement | 922,972 | - | https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002226/ScoringFiles/PGS002226.txt.gz |
PGS Performance Metric ID (PPM) |
Evaluated Score
|
PGS Sample Set ID (PSS) |
Performance Source
|
Trait
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PGS Effect Sizes (per SD change) |
Classification Metrics
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Other Metrics
|
Covariates Included in the Model
|
PGS Performance: Other Relevant Information |
|---|---|---|---|---|---|---|---|---|---|
| PPM001423 | PGS000695 (snpnet.Sodium_in_urine) | PSS000749| African Ancestry| 5,781 individuals | PGP000128 | Sinnott-Armstrong N et al. Nat Genet (2021) | Reported Trait: Sodium in urine [mmol/L] | — | — | R²: 0.0456 Spearman's ρ: 0.029 | Age, sex, PCs(1-40) | — |
| PPM001458 | PGS000695 (snpnet.Sodium_in_urine) | PSS000750| East Asian Ancestry| 1,044 individuals | PGP000128 | Sinnott-Armstrong N et al. Nat Genet (2021) | Reported Trait: Sodium in urine [mmol/L] | — | — | R²: 0.09743 Spearman's ρ: 0.068 | Age, sex, PCs(1-40) | — |
| PPM001493 | PGS000695 (snpnet.Sodium_in_urine) | PSS000751| European Ancestry| 22,812 individuals | PGP000128 | Sinnott-Armstrong N et al. Nat Genet (2021) | Reported Trait: Sodium in urine [mmol/L] | — | — | R²: 0.11027 Spearman's ρ: 0.077 | Age, sex, PCs(1-40) | — |
| PPM001528 | PGS000695 (snpnet.Sodium_in_urine) | PSS000752| South Asian Ancestry| 6,993 individuals | PGP000128 | Sinnott-Armstrong N et al. Nat Genet (2021) | Reported Trait: Sodium in urine [mmol/L] | — | — | R²: 0.06605 Spearman's ρ: 0.059 | Age, sex, PCs(1-40) | — |
| PPM001563 | PGS000695 (snpnet.Sodium_in_urine) | PSS000753| European Ancestry| 62,011 individuals | PGP000128 | Sinnott-Armstrong N et al. Nat Genet (2021) | Reported Trait: Sodium in urine [mmol/L] | — | — | R²: 0.09883 Spearman's ρ: 0.09 | Age, sex, PCs(1-40) | — |
| PPM001588 | PGS000695 (snpnet.Sodium_in_urine) | PSS000836| European Ancestry| 2,117 individuals | PGP000128 | Sinnott-Armstrong N et al. Nat Genet (2021) | Reported Trait: Sodium in urine [mmol/L] | — | — | Spearman's ρ: 0.059 | Age, sex | — |
| PPM007400 | PGS000695 (snpnet.Sodium_in_urine) | PSS007061| African Ancestry| 6,233 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |Ext. | Reported Trait: Sodium in urine | — | — | R²: 0.05917 [0.04805, 0.07029] Incremental R2 (full-covars): 5e-05 PGS R2 (no covariates): 0.00059 [-0.00059, 0.00177] | age, sex, UKB array type, Genotype PCs | — |
| PPM007401 | PGS000695 (snpnet.Sodium_in_urine) | PSS007062| East Asian Ancestry| 1,643 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |Ext. | Reported Trait: Sodium in urine | — | — | R²: 0.08627 [0.06084, 0.11171] Incremental R2 (full-covars): 0.00013 PGS R2 (no covariates): 0.00482 [-0.00173, 0.01137] | age, sex, UKB array type, Genotype PCs | — |
| PPM007402 | PGS000695 (snpnet.Sodium_in_urine) | PSS007063| European Ancestry| 24,080 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |Ext. | Reported Trait: Sodium in urine | — | — | R²: 0.09373 [0.08684, 0.10062] Incremental R2 (full-covars): 0.00019 PGS R2 (no covariates): 0.00572 [0.00385, 0.00758] | age, sex, UKB array type, Genotype PCs | — |
| PPM007403 | PGS000695 (snpnet.Sodium_in_urine) | PSS007064| South Asian Ancestry| 7,459 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |Ext. | Reported Trait: Sodium in urine | — | — | R²: 0.05861 [0.04852, 0.0687] Incremental R2 (full-covars): 0.00012 PGS R2 (no covariates): 0.00376 [0.00105, 0.00646] | age, sex, UKB array type, Genotype PCs | — |
| PPM007404 | PGS000695 (snpnet.Sodium_in_urine) | PSS007065| European Ancestry| 65,531 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |Ext. | Reported Trait: Sodium in urine | — | — | R²: 0.07284 [0.06906, 0.07661] Incremental R2 (full-covars): 0.00025 PGS R2 (no covariates): 0.00836 [0.00699, 0.00973] | age, sex, UKB array type, Genotype PCs | — |
| PPM010930 | PGS002007 (portability-PLR_sodium_urine) | PSS009492| European Ancestry| 19,357 individuals | PGP000263 | Privé F et al. Am J Hum Genet (2022) | Reported Trait: Sodium in urine | — | — | Partial Correlation (partial-r): 0.1218 [0.1079, 0.1357] | sex, age, birth date, deprivation index, 16 PCs | — |
| PPM010931 | PGS002007 (portability-PLR_sodium_urine) | PSS009266| European Ancestry| 3,966 individuals | PGP000263 | Privé F et al. Am J Hum Genet (2022) | Reported Trait: Sodium in urine | — | — | Partial Correlation (partial-r): 0.089 [0.058, 0.1199] | sex, age, birth date, deprivation index, 16 PCs | — |
| PPM010932 | PGS002007 (portability-PLR_sodium_urine) | PSS008820| European Ancestry| 6,423 individuals | PGP000263 | Privé F et al. Am J Hum Genet (2022) | Reported Trait: Sodium in urine | — | — | Partial Correlation (partial-r): 0.1028 [0.0785, 0.127] | sex, age, birth date, deprivation index, 16 PCs | — |
| PPM010933 | PGS002007 (portability-PLR_sodium_urine) | PSS008594| Greater Middle Eastern Ancestry| 1,143 individuals | PGP000263 | Privé F et al. Am J Hum Genet (2022) | Reported Trait: Sodium in urine | — | — | Partial Correlation (partial-r): 0.0662 [0.0078, 0.1242] | sex, age, birth date, deprivation index, 16 PCs | — |
PGS Sample Set ID (PSS) |
Phenotype Definitions and Methods
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Participant Follow-up Time
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Sample Numbers
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Age of Study Participants
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Sample Ancestry
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Additional Ancestry Description
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Cohort(s)
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Additional Sample/Cohort Information
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|---|---|---|---|---|---|---|---|---|
| PSS000749 | — | — | 5,781 individuals | — | African unspecified | — | UKB | — |
| PSS000750 | — | — | 1,044 individuals | — | East Asian | — | UKB | — |
| PSS000751 | — | — | 22,812 individuals | — | European | Non-British White | UKB | — |
| PSS000752 | — | — | 6,993 individuals | — | South Asian | — | UKB | — |
| PSS000753 | — | — | 62,011 individuals | — | European (British) | — | UKB | — |
| PSS000836 | — | — | 2,117 individuals | — | European | Participants self-identifying as white | MESA | — |
| PSS007061 | — | — | 6,233 individuals | — | African unspecified | — | UKB | — |
| PSS007062 | — | — | 1,643 individuals | — | East Asian | — | UKB | — |
| PSS007063 | — | — | 24,080 individuals | — | European | non-white British ancestry | UKB | — |
| PSS007064 | — | — | 7,459 individuals | — | South Asian | — | UKB | — |
| PSS007065 | — | — | 65,531 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |
| PSS007936 | — | — | 2,380 individuals | — | African American or Afro-Caribbean | Carribean | UKB | — |
| PSS008148 | — | — | 1,743 individuals | — | East Asian | China (East Asia) | UKB | — |
| PSS008372 | — | — | 6,018 individuals | — | South Asian | India (South Asia) | UKB | — |
| PSS008594 | — | — | 1,143 individuals | — | Greater Middle Eastern (Middle Eastern, North African or Persian) | Iran (Middle East) | UKB | — |