Trait: phosphate measurement

Experimental Factor Ontology (EFO) Information
Identifier EFO_0010968
Description Quantification of phosphate levels in a sample.
Trait category
Other measurement
Mapped term PMID:33462484

Associated Polygenic Score(s)

Filter PGS by Participant Ancestry
Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
List of ancestries includes:
Display options:
Ancestry legend
Multi-ancestry (including European)
Multi-ancestry (excluding European)
African
East Asian
South Asian
Additional Asian Ancestries
European
Greater Middle Eastern
Hispanic or Latin American
Additional Diverse Ancestries
Not Reported
Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution
GWAS
Dev
Eval
 Scoring File (FTP Link)
PGS000692
(snpnet.Phosphate)
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Phosphate [mmol/L] phosphate measurement 12,448
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000692/ScoringFiles/PGS000692.txt.gz - Check Terms/Licenses
PGS001998
(portability-PLR_phosphate)
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Phosphate phosphate measurement 47,793
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001998/ScoringFiles/PGS001998.txt.gz
PGS002216
(portability-ldpred2_phosphate)
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Phosphate phosphate measurement 708,693
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002216/ScoringFiles/PGS002216.txt.gz
PGS004339
(X30810.score)
 PGP000561 |
Jung H et al. Commun Biol (2024)
 Phosphate (mmol/L) phosphate measurement 1,059,939
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS004339/ScoringFiles/PGS004339.txt.gz

Performance Metrics

Disclaimer: The performance metrics are displayed as reported by the source studies. It is important to note that metrics are not necessarily comparable with each other. For example, metrics depend on the sample characteristics (described by the PGS Catalog Sample Set [PSS] ID), phenotyping, and statistical modelling. Please refer to the source publication for additional guidance on performance.

PGS Performance
Metric ID (PPM) 		Evaluated Score 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
PPM001420 PGS000692
(snpnet.Phosphate)
 PSS000734|
African Ancestry|
5,568 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Phosphate [mmol/L] — — R²: 0.12827
Spearman's ρ: 0.115		 Age, sex, PCs(1-40) —
PPM001455 PGS000692
(snpnet.Phosphate)
 PSS000735|
East Asian Ancestry|
986 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Phosphate [mmol/L] — — R²: 0.20287
Spearman's ρ: 0.222		 Age, sex, PCs(1-40) —
PPM001490 PGS000692
(snpnet.Phosphate)
 PSS000736|
European Ancestry|
21,497 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Phosphate [mmol/L] — — R²: 0.22656
Spearman's ρ: 0.253		 Age, sex, PCs(1-40) —
PPM001525 PGS000692
(snpnet.Phosphate)
 PSS000737|
South Asian Ancestry|
6,685 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Phosphate [mmol/L] — — R²: 0.20962
Spearman's ρ: 0.226		 Age, sex, PCs(1-40) —
PPM001560 PGS000692
(snpnet.Phosphate)
 PSS000738|
European Ancestry|
58,167 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Phosphate [mmol/L] — — Spearman's ρ: 0.255
R²: 0.23753		 Age, sex, PCs(1-40) —
PPM001587 PGS000692
(snpnet.Phosphate)
 PSS000828|
European Ancestry|
2,081 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Phosphate [mmol/L] — — Spearman's ρ: 0.248 Age, sex —
PPM007385 PGS000692
(snpnet.Phosphate)
 PSS007181|
African Ancestry|
5,650 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Phosphate — — R²: 0.0376 [0.02853, 0.04667]
Incremental R2 (full-covars): 0.01325
PGS R2 (no covariates): 0.01546 [0.00951, 0.02141]		 age, sex, UKB array type, Genotype PCs —
PPM007386 PGS000692
(snpnet.Phosphate)
 PSS007182|
East Asian Ancestry|
1,473 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Phosphate — — R²: 0.10627 [0.07866, 0.13388]
Incremental R2 (full-covars): 0.01785
PGS R2 (no covariates): 0.03634 [0.01893, 0.05375]		 age, sex, UKB array type, Genotype PCs —
PPM007387 PGS000692
(snpnet.Phosphate)
 PSS007183|
European Ancestry|
21,704 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Phosphate — — R²: 0.10387 [0.0967, 0.11104]
Incremental R2 (full-covars): 0.05604
PGS R2 (no covariates): 0.05717 [0.05157, 0.06277]		 age, sex, UKB array type, Genotype PCs —
PPM007388 PGS000692
(snpnet.Phosphate)
 PSS007184|
South Asian Ancestry|
6,778 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Phosphate — — R²: 0.09621 [0.0838, 0.10862]
Incremental R2 (full-covars): 0.0525
PGS R2 (no covariates): 0.05371 [0.044, 0.06342]		 age, sex, UKB array type, Genotype PCs —
PPM007389 PGS000692
(snpnet.Phosphate)
 PSS007185|
European Ancestry|
58,977 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Phosphate — — R²: 0.11827 [0.11369, 0.12284]
Incremental R2 (full-covars): 0.05726
PGS R2 (no covariates): 0.05777 [0.05435, 0.06119]		 age, sex, UKB array type, Genotype PCs —
PPM010859 PGS001998
(portability-PLR_phosphate)
 PSS009482|
European Ancestry|
17,416 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Phosphate — — Partial Correlation (partial-r): 0.2712 [0.2574, 0.2849] sex, age, birth date, deprivation index, 16 PCs —
PPM010860 PGS001998
(portability-PLR_phosphate)
 PSS009256|
European Ancestry|
3,587 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Phosphate — — Partial Correlation (partial-r): 0.2829 [0.2524, 0.3128] sex, age, birth date, deprivation index, 16 PCs —
PPM010861 PGS001998
(portability-PLR_phosphate)
 PSS008810|
European Ancestry|
5,788 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Phosphate — — Partial Correlation (partial-r): 0.2787 [0.2547, 0.3024] sex, age, birth date, deprivation index, 16 PCs —
PPM010862 PGS001998
(portability-PLR_phosphate)
 PSS008584|
Greater Middle Eastern Ancestry|
1,032 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Phosphate — — Partial Correlation (partial-r): 0.3088 [0.252, 0.3635] sex, age, birth date, deprivation index, 16 PCs —
PPM010863 PGS001998
(portability-PLR_phosphate)
 PSS008362|
South Asian Ancestry|
5,480 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Phosphate — — Partial Correlation (partial-r): 0.2425 [0.2174, 0.2673] sex, age, birth date, deprivation index, 16 PCs —
PPM010864 PGS001998
(portability-PLR_phosphate)
 PSS008139|
East Asian Ancestry|
1,562 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Phosphate — — Partial Correlation (partial-r): 0.2335 [0.1858, 0.2802] sex, age, birth date, deprivation index, 16 PCs —
PPM010865 PGS001998
(portability-PLR_phosphate)
 PSS007926|
African Ancestry|
2,158 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Phosphate — — Partial Correlation (partial-r): 0.1653 [0.1238, 0.2063] sex, age, birth date, deprivation index, 16 PCs —
PPM010866 PGS001998
(portability-PLR_phosphate)
 PSS009030|
African Ancestry|
3,396 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Phosphate — — Partial Correlation (partial-r): 0.1139 [0.0804, 0.147] sex, age, birth date, deprivation index, 16 PCs —
PPM012579 PGS002216
(portability-ldpred2_phosphate)
 PSS008362|
South Asian Ancestry|
5,480 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Phosphate — — Partial Correlation (partial-r): 0.2384 [0.2132, 0.2632] sex, age, birth date, deprivation index, 16 PCs —
PPM012575 PGS002216
(portability-ldpred2_phosphate)
 PSS009482|
European Ancestry|
17,416 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Phosphate — — Partial Correlation (partial-r): 0.2668 [0.253, 0.2806] sex, age, birth date, deprivation index, 16 PCs —
PPM012576 PGS002216
(portability-ldpred2_phosphate)
 PSS009256|
European Ancestry|
3,587 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Phosphate — — Partial Correlation (partial-r): 0.282 [0.2515, 0.3119] sex, age, birth date, deprivation index, 16 PCs —
PPM012577 PGS002216
(portability-ldpred2_phosphate)
 PSS008810|
European Ancestry|
5,788 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Phosphate — — Partial Correlation (partial-r): 0.2782 [0.2543, 0.3019] sex, age, birth date, deprivation index, 16 PCs —
PPM012578 PGS002216
(portability-ldpred2_phosphate)
 PSS008584|
Greater Middle Eastern Ancestry|
1,032 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Phosphate — — Partial Correlation (partial-r): 0.3032 [0.2461, 0.3581] sex, age, birth date, deprivation index, 16 PCs —
PPM012580 PGS002216
(portability-ldpred2_phosphate)
 PSS008139|
East Asian Ancestry|
1,562 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Phosphate — — Partial Correlation (partial-r): 0.2344 [0.1866, 0.281] sex, age, birth date, deprivation index, 16 PCs —
PPM012581 PGS002216
(portability-ldpred2_phosphate)
 PSS007926|
African Ancestry|
2,158 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Phosphate — — Partial Correlation (partial-r): 0.1553 [0.1137, 0.1964] sex, age, birth date, deprivation index, 16 PCs —
PPM012582 PGS002216
(portability-ldpred2_phosphate)
 PSS009030|
African Ancestry|
3,396 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Phosphate — — Partial Correlation (partial-r): 0.1152 [0.0818, 0.1483] sex, age, birth date, deprivation index, 16 PCs —
PPM020454 PGS004339
(X30810.score)
 PSS011364|
European Ancestry|
56,192 individuals
 PGP000561 |
Jung H et al. Commun Biol (2024)
 Reported Trait: Phosphate (mmol/L) — — PGS R2 (no covariates): 0.16428 — —

Evaluated Samples

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
PSS009030 — — 3,396 individuals — African unspecified Nigeria (West Africa) UKB —
PSS008139 — — 1,562 individuals — East Asian China (East Asia) UKB —
PSS000828 — — 2,081 individuals — European Participants self-identifying as white MESA —
PSS008810 — — 5,788 individuals — European Italy (South Europe) UKB —
PSS007926 — — 2,158 individuals — African American or Afro-Caribbean Carribean UKB —
PSS000734 — — 5,568 individuals — African unspecified — UKB —
PSS000735 — — 986 individuals — East Asian — UKB —
PSS000736 — — 21,497 individuals — European Non-British White UKB —
PSS000737 — — 6,685 individuals — South Asian — UKB —
PSS000738 — — 58,167 individuals — European
(British)		 — UKB —
PSS008584 — — 1,032 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS009482 — — 17,416 individuals — European UK (+ Ireland) UKB —
PSS007181 — — 5,650 individuals — African unspecified — UKB —
PSS007182 — — 1,473 individuals — East Asian — UKB —
PSS007183 — — 21,704 individuals — European non-white British ancestry UKB —
PSS007184 — — 6,778 individuals — South Asian — UKB —
PSS007185 — — 58,977 individuals — European white British ancestry UKB Testing cohort (heldout set)
PSS011364 — — 56,192 individuals — European — UKB —
PSS009256 — — 3,587 individuals — European Poland (NE Europe) UKB —
PSS008362 — — 5,480 individuals — South Asian India (South Asia) UKB —