Trait: vitamin D measurement

Experimental Factor Ontology (EFO) Information
Identifier EFO_0004631
Description
  • A quantification of Vitamin D levels, typically in blood. Vitamin D includes both CHOLECALCIFEROLS and ERGOCALCIFEROLS, which have the common effect of preventing or curing RICKETS in animals. It can also be viewed as a hormone since it can be formed in SKIN by action of ULTRAVIOLET RAYS upon the precursors, 7-dehydrocholesterol and ERGOSTEROL, and acts on VITAMIN D RECEPTORS to regulate CALCIUM in opposition to PARATHYROID HORMONE (MeSH). 25-hydroxyvitamin D or calcifediol, a prehormone precursor of vitamin D, is widely used as a proxy to quanitfy vitamin D levels in blood.
  • is about MeSH:D014807
Trait category
Lipid or lipoprotein measurement
Mapped terms 2 mapped terms
  • NCIt:C84818
  • SNOMEDCT:83729008

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)
PGS000702
(snpnet.Vitamin_D)
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Vitamin D [nmol/L] vitamin D measurement 8,012
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000702/ScoringFiles/PGS000702.txt.gz - Check Terms/Licenses
PGS000882
(25OHD_SBayesR_PGS)
 PGP000228 |
Revez JA et al. Nat Commun (2020)
 25-hydroxyvitamin D vitamin D measurement 1,094,650
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000882/ScoringFiles/PGS000882.txt.gz
PGS001982
(portability-PLR_log_vitaminD)
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 35,123
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001982/ScoringFiles/PGS001982.txt.gz
PGS002200
(portability-ldpred2_log_vitaminD)
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 567,735
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002200/ScoringFiles/PGS002200.txt.gz
PGS002355
(biochemistry_VitaminD.BOLT-LMM)
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Vitamin D vitamin D measurement 1,109,311
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002355/ScoringFiles/PGS002355.txt.gz
PGS002427
(biochemistry_VitaminD.P+T.0.0001)
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Vitamin D vitamin D measurement 4,821
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002427/ScoringFiles/PGS002427.txt.gz
PGS002476
(biochemistry_VitaminD.P+T.0.001)
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Vitamin D vitamin D measurement 16,848
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002476/ScoringFiles/PGS002476.txt.gz
PGS002525
(biochemistry_VitaminD.P+T.0.01)
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Vitamin D vitamin D measurement 99,894
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002525/ScoringFiles/PGS002525.txt.gz
PGS002574
(biochemistry_VitaminD.P+T.1e-06)
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Vitamin D vitamin D measurement 1,677
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002574/ScoringFiles/PGS002574.txt.gz
PGS002623
(biochemistry_VitaminD.P+T.5e-08)
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Vitamin D vitamin D measurement 1,183
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002623/ScoringFiles/PGS002623.txt.gz
PGS002672
(biochemistry_VitaminD.PolyFun-pred)
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Vitamin D vitamin D measurement 330,506
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002672/ScoringFiles/PGS002672.txt.gz
PGS002721
(biochemistry_VitaminD.SBayesR)
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Vitamin D vitamin D measurement 981,998
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002721/ScoringFiles/PGS002721.txt.gz
PGS003174
(ExPRSweb_VitD_100021-irnt_LASSOSUM_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 312,224
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003174/ScoringFiles/PGS003174.txt.gz
PGS003175
(ExPRSweb_VitD_100021-irnt_PT_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 11
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003175/ScoringFiles/PGS003175.txt.gz
PGS003176
(ExPRSweb_VitD_100021-irnt_PLINK_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 19
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003176/ScoringFiles/PGS003176.txt.gz
PGS003177
(ExPRSweb_VitD_100021-irnt_DBSLMM_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 10,318,270
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003177/ScoringFiles/PGS003177.txt.gz
PGS003178
(ExPRSweb_VitD_100021-irnt_PRSCS_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 1,113,819
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003178/ScoringFiles/PGS003178.txt.gz
PGS003179
(ExPRSweb_VitD_100021-raw_LASSOSUM_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 310,479
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003179/ScoringFiles/PGS003179.txt.gz
PGS003180
(ExPRSweb_VitD_100021-raw_PT_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 5
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003180/ScoringFiles/PGS003180.txt.gz
PGS003181
(ExPRSweb_VitD_100021-raw_PLINK_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 15
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003181/ScoringFiles/PGS003181.txt.gz
PGS003182
(ExPRSweb_VitD_100021-raw_DBSLMM_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 10,318,270
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003182/ScoringFiles/PGS003182.txt.gz
PGS003183
(ExPRSweb_VitD_100021-raw_PRSCS_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 1,113,819
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003183/ScoringFiles/PGS003183.txt.gz
PGS003184
(ExPRSweb_VitD_29343764-GCST005367_LASSOSUM_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 108,547
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003184/ScoringFiles/PGS003184.txt.gz
PGS003185
(ExPRSweb_VitD_29343764-GCST005367_PT_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 16
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003185/ScoringFiles/PGS003185.txt.gz
PGS003186
(ExPRSweb_VitD_29343764-GCST005367_PLINK_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 15
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003186/ScoringFiles/PGS003186.txt.gz
PGS003187
(ExPRSweb_VitD_29343764-GCST005367_DBSLMM_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 98,135
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003187/ScoringFiles/PGS003187.txt.gz
PGS003188
(ExPRSweb_VitD_29343764-GCST005367_PRSCS_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 1,058,027
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003188/ScoringFiles/PGS003188.txt.gz
PGS003189
(ExPRSweb_VitD_30890-irnt_LASSOSUM_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 547,654
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003189/ScoringFiles/PGS003189.txt.gz
PGS003190
(ExPRSweb_VitD_30890-irnt_PT_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 495
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003190/ScoringFiles/PGS003190.txt.gz
PGS003191
(ExPRSweb_VitD_30890-irnt_PLINK_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 605
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003191/ScoringFiles/PGS003191.txt.gz
PGS003192
(ExPRSweb_VitD_30890-irnt_DBSLMM_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 10,313,259
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003192/ScoringFiles/PGS003192.txt.gz
PGS003193
(ExPRSweb_VitD_30890-irnt_PRSCS_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 1,113,831
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003193/ScoringFiles/PGS003193.txt.gz
PGS003194
(ExPRSweb_VitD_30890-raw_LASSOSUM_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 548,161
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003194/ScoringFiles/PGS003194.txt.gz
PGS003195
(ExPRSweb_VitD_30890-raw_PT_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 404
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003195/ScoringFiles/PGS003195.txt.gz
PGS003196
(ExPRSweb_VitD_30890-raw_PLINK_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 500
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003196/ScoringFiles/PGS003196.txt.gz
PGS003197
(ExPRSweb_VitD_30890-raw_DBSLMM_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 10,313,258
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003197/ScoringFiles/PGS003197.txt.gz
PGS003198
(ExPRSweb_VitD_30890-raw_PRSCS_MGI_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 1,113,831
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003198/ScoringFiles/PGS003198.txt.gz
PGS003199
(ExPRSweb_VitD_29343764-GCST005367_LASSOSUM_UKB_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 109,290
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003199/ScoringFiles/PGS003199.txt.gz
PGS003200
(ExPRSweb_VitD_29343764-GCST005367_PT_UKB_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 23
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003200/ScoringFiles/PGS003200.txt.gz
PGS003201
(ExPRSweb_VitD_29343764-GCST005367_PLINK_UKB_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 22
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003201/ScoringFiles/PGS003201.txt.gz
PGS003202
(ExPRSweb_VitD_29343764-GCST005367_DBSLMM_UKB_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 805,427
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003202/ScoringFiles/PGS003202.txt.gz
PGS003203
(ExPRSweb_VitD_29343764-GCST005367_PRSCS_UKB_20211120)
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Vitamin D vitamin D measurement 1,058,756
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003203/ScoringFiles/PGS003203.txt.gz
PGS003554
(cont-decay-log_vitaminD)
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Vitamin D vitamin D measurement 979,739
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003554/ScoringFiles/PGS003554.txt.gz
PGS004344
(X30890.score)
 PGP000561 |
Jung H et al. Commun Biol (2024)
 Vitamin D (nmol/L) vitamin D measurement 1,059,939
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS004344/ScoringFiles/PGS004344.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
PPM001430 PGS000702
(snpnet.Vitamin_D)
 PSS000787|
African Ancestry|
5,845 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Vitamin D [nmol/L] — — R²: 0.09201
Spearman's ρ: 0.055		 Age, sex, PCs(1-40) —
PPM001465 PGS000702
(snpnet.Vitamin_D)
 PSS000788|
East Asian Ancestry|
1,055 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Vitamin D [nmol/L] — — R²: 0.11925
Spearman's ρ: 0.095		 Age, sex, PCs(1-40) —
PPM001500 PGS000702
(snpnet.Vitamin_D)
 PSS000789|
European Ancestry|
22,617 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Vitamin D [nmol/L] — — R²: 0.21171
Spearman's ρ: 0.211		 Age, sex, PCs(1-40) —
PPM001535 PGS000702
(snpnet.Vitamin_D)
 PSS000790|
South Asian Ancestry|
6,425 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Vitamin D [nmol/L] — — R²: 0.07695
Spearman's ρ: 0.08		 Age, sex, PCs(1-40) —
PPM001570 PGS000702
(snpnet.Vitamin_D)
 PSS000791|
European Ancestry|
60,998 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Vitamin D [nmol/L] — — R²: 0.22856
Spearman's ρ: 0.226		 Age, sex, PCs(1-40) —
PPM001586 PGS000702
(snpnet.Vitamin_D)
 PSS000803|
European Ancestry|
2,058 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Vitamin D [nmol/L] — — Spearman's ρ: 0.137 Age, sex —
PPM007435 PGS000702
(snpnet.Vitamin_D)
 PSS007216|
African Ancestry|
5,926 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Vitamin D — — R²: 0.04539 [0.0355, 0.05527]
Incremental R2 (full-covars): 0.00047
PGS R2 (no covariates): 0.00322 [0.00047, 0.00597]		 age, sex, UKB array type, Genotype PCs —
PPM007436 PGS000702
(snpnet.Vitamin_D)
 PSS007217|
East Asian Ancestry|
1,570 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Vitamin D — — R²: 0.05891 [0.03726, 0.08055]
Incremental R2 (full-covars): 0.00078
PGS R2 (no covariates): 0.00411 [-0.00194, 0.01016]		 age, sex, UKB array type, Genotype PCs —
PPM007437 PGS000702
(snpnet.Vitamin_D)
 PSS007218|
European Ancestry|
22,820 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Vitamin D — — R²: 0.01597 [0.01288, 0.01905]
Incremental R2 (full-covars): 0.0019
PGS R2 (no covariates): 0.04772 [0.04255, 0.05289]		 age, sex, UKB array type, Genotype PCs —
PPM007438 PGS000702
(snpnet.Vitamin_D)
 PSS007219|
South Asian Ancestry|
6,507 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Vitamin D — — R²: 0.05098 [0.04149, 0.06047]
Incremental R2 (full-covars): 0.00081
PGS R2 (no covariates): 0.00364 [0.00098, 0.00631]		 age, sex, UKB array type, Genotype PCs —
PPM007439 PGS000702
(snpnet.Vitamin_D)
 PSS007220|
European Ancestry|
61,724 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Vitamin D — — R²: 0.01125 [0.00967, 0.01283]
Incremental R2 (full-covars): 0.00186
PGS R2 (no covariates): 0.0483 [0.04514, 0.05145]		 age, sex, UKB array type, Genotype PCs —
PPM022175 PGS000702
(snpnet.Vitamin_D)
 PSS011828|
Greater Middle Eastern Ancestry|
5,885 individuals
 PGP000682 |
Hendi NN et al. Front Nutr (2023)
|Ext.		 Reported Trait: Vitamin D deficiency OR: 0.0935 [0.042, 0.2071] AUROC: 0.68 — — —
PPM022176 PGS000702
(snpnet.Vitamin_D)
 PSS011828|
Greater Middle Eastern Ancestry|
5,885 individuals
 PGP000682 |
Hendi NN et al. Front Nutr (2023)
|Ext.		 Reported Trait: Vitamin D insufficiency and deficiency OR: 0.0832 [0.0259, 0.2646] AUROC: 0.6385 — — —
PPM002526 PGS000882
(25OHD_SBayesR_PGS)
 PSS001141|
European Ancestry|
1,632 individuals
 PGP000228 |
Revez JA et al. Nat Commun (2020)
 Reported Trait: 25-hydroxyvitamin D levels β: 0.269 (0.02) — R²: 0.096 sex, assessment month, supplement intake (ever), PCs(1-5) —
PPM002527 PGS000882
(25OHD_SBayesR_PGS)
 PSS001142|
European Ancestry|
1,632 individuals
 PGP000228 |
Revez JA et al. Nat Commun (2020)
 Reported Trait: 25-hydroxyvitamin D levels β: 0.24 (0.024) — R²: 0.0554 — —
PPM020900 PGS000882
(25OHD_SBayesR_PGS)
 PSS011443|
Greater Middle Eastern Ancestry|
194 individuals
 PGP000600 |
Hendi NN et al. Nutrients (2023)
|Ext.		 Reported Trait: Vitamin D deficiency OR: 1.6 [1.3, 13.7] AUROC: 0.644 — Age, sex, 4 PCs Only 41,736 of 1,094,650 variants available in cohort
PPM021729 PGS000882
(25OHD_SBayesR_PGS)
 PSS011762|
European Ancestry|
8,417 individuals
 PGP000665 |
Moreno-Grau S et al. Human Genomics (2024)
|Ext.		 Reported Trait: Vitamin D level OR: 0.82 [0.78, 0.86] AUROC: 0.63 — — —
PPM010731 PGS001982
(portability-PLR_log_vitaminD)
 PSS009470|
European Ancestry|
18,172 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D — — Partial Correlation (partial-r): 0.2293 [0.2154, 0.243] sex, age, birth date, deprivation index, 16 PCs —
PPM010732 PGS001982
(portability-PLR_log_vitaminD)
 PSS009244|
European Ancestry|
3,778 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D — — Partial Correlation (partial-r): 0.1838 [0.1527, 0.2145] sex, age, birth date, deprivation index, 16 PCs —
PPM010733 PGS001982
(portability-PLR_log_vitaminD)
 PSS008798|
European Ancestry|
6,046 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D — — Partial Correlation (partial-r): 0.2179 [0.1937, 0.2418] sex, age, birth date, deprivation index, 16 PCs —
PPM010734 PGS001982
(portability-PLR_log_vitaminD)
 PSS008572|
Greater Middle Eastern Ancestry|
1,036 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D — — Partial Correlation (partial-r): 0.1893 [0.1293, 0.2479] sex, age, birth date, deprivation index, 16 PCs —
PPM010735 PGS001982
(portability-PLR_log_vitaminD)
 PSS008350|
South Asian Ancestry|
5,186 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D — — Partial Correlation (partial-r): 0.0774 [0.0502, 0.1044] sex, age, birth date, deprivation index, 16 PCs —
PPM010736 PGS001982
(portability-PLR_log_vitaminD)
 PSS008127|
East Asian Ancestry|
1,662 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D — — Partial Correlation (partial-r): 0.081 [0.0327, 0.1289] sex, age, birth date, deprivation index, 16 PCs —
PPM010738 PGS001982
(portability-PLR_log_vitaminD)
 PSS009018|
African Ancestry|
3,569 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D — — Partial Correlation (partial-r): 0.0393 [0.0064, 0.0721] sex, age, birth date, deprivation index, 16 PCs —
PPM010737 PGS001982
(portability-PLR_log_vitaminD)
 PSS007914|
African Ancestry|
2,266 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D — — Partial Correlation (partial-r): 0.0616 [0.0203, 0.1027] sex, age, birth date, deprivation index, 16 PCs —
PPM012447 PGS002200
(portability-ldpred2_log_vitaminD)
 PSS009470|
European Ancestry|
18,172 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D — — Partial Correlation (partial-r): 0.2228 [0.2089, 0.2365] sex, age, birth date, deprivation index, 16 PCs —
PPM012448 PGS002200
(portability-ldpred2_log_vitaminD)
 PSS009244|
European Ancestry|
3,778 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D — — Partial Correlation (partial-r): 0.174 [0.1428, 0.2048] sex, age, birth date, deprivation index, 16 PCs —
PPM012449 PGS002200
(portability-ldpred2_log_vitaminD)
 PSS008798|
European Ancestry|
6,046 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D — — Partial Correlation (partial-r): 0.2231 [0.199, 0.247] sex, age, birth date, deprivation index, 16 PCs —
PPM012450 PGS002200
(portability-ldpred2_log_vitaminD)
 PSS008572|
Greater Middle Eastern Ancestry|
1,036 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D — — Partial Correlation (partial-r): 0.1892 [0.1292, 0.2478] sex, age, birth date, deprivation index, 16 PCs —
PPM012452 PGS002200
(portability-ldpred2_log_vitaminD)
 PSS008127|
East Asian Ancestry|
1,662 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D — — Partial Correlation (partial-r): 0.084 [0.0358, 0.1319] sex, age, birth date, deprivation index, 16 PCs —
PPM012453 PGS002200
(portability-ldpred2_log_vitaminD)
 PSS007914|
African Ancestry|
2,266 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D — — Partial Correlation (partial-r): 0.0669 [0.0256, 0.1079] sex, age, birth date, deprivation index, 16 PCs —
PPM012454 PGS002200
(portability-ldpred2_log_vitaminD)
 PSS009018|
African Ancestry|
3,569 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D — — Partial Correlation (partial-r): 0.0423 [0.0094, 0.0751] sex, age, birth date, deprivation index, 16 PCs —
PPM012451 PGS002200
(portability-ldpred2_log_vitaminD)
 PSS008350|
South Asian Ancestry|
5,186 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D — — Partial Correlation (partial-r): 0.0828 [0.0557, 0.1098] sex, age, birth date, deprivation index, 16 PCs —
PPM013120 PGS002355
(biochemistry_VitaminD.BOLT-LMM)
 PSS009863|
African Ancestry|
5,876 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0049 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM013169 PGS002355
(biochemistry_VitaminD.BOLT-LMM)
 PSS009864|
East Asian Ancestry|
855 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.006 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM013218 PGS002355
(biochemistry_VitaminD.BOLT-LMM)
 PSS009865|
European Ancestry|
39,443 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0536 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM013267 PGS002355
(biochemistry_VitaminD.BOLT-LMM)
 PSS009866|
South Asian Ancestry|
6,746 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0099 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM013457 PGS002427
(biochemistry_VitaminD.P+T.0.0001)
 PSS009864|
East Asian Ancestry|
855 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0024 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM013408 PGS002427
(biochemistry_VitaminD.P+T.0.0001)
 PSS009863|
African Ancestry|
5,876 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0009 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM013506 PGS002427
(biochemistry_VitaminD.P+T.0.0001)
 PSS009865|
European Ancestry|
39,443 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0331 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM013555 PGS002427
(biochemistry_VitaminD.P+T.0.0001)
 PSS009866|
South Asian Ancestry|
6,746 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0052 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM013604 PGS002476
(biochemistry_VitaminD.P+T.0.001)
 PSS009863|
African Ancestry|
5,876 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0001 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM013653 PGS002476
(biochemistry_VitaminD.P+T.0.001)
 PSS009864|
East Asian Ancestry|
855 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0007 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM013702 PGS002476
(biochemistry_VitaminD.P+T.0.001)
 PSS009865|
European Ancestry|
39,443 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0265 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM013751 PGS002476
(biochemistry_VitaminD.P+T.0.001)
 PSS009866|
South Asian Ancestry|
6,746 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0018 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM013800 PGS002525
(biochemistry_VitaminD.P+T.0.01)
 PSS009863|
African Ancestry|
5,876 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM013849 PGS002525
(biochemistry_VitaminD.P+T.0.01)
 PSS009864|
East Asian Ancestry|
855 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0002 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM013898 PGS002525
(biochemistry_VitaminD.P+T.0.01)
 PSS009865|
European Ancestry|
39,443 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0133 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM013947 PGS002525
(biochemistry_VitaminD.P+T.0.01)
 PSS009866|
South Asian Ancestry|
6,746 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0003 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM013996 PGS002574
(biochemistry_VitaminD.P+T.1e-06)
 PSS009863|
African Ancestry|
5,876 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0031 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM014045 PGS002574
(biochemistry_VitaminD.P+T.1e-06)
 PSS009864|
East Asian Ancestry|
855 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0039 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM014094 PGS002574
(biochemistry_VitaminD.P+T.1e-06)
 PSS009865|
European Ancestry|
39,443 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0321 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM014143 PGS002574
(biochemistry_VitaminD.P+T.1e-06)
 PSS009866|
South Asian Ancestry|
6,746 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0062 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM014192 PGS002623
(biochemistry_VitaminD.P+T.5e-08)
 PSS009863|
African Ancestry|
5,876 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0038 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM014241 PGS002623
(biochemistry_VitaminD.P+T.5e-08)
 PSS009864|
East Asian Ancestry|
855 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0034 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM014290 PGS002623
(biochemistry_VitaminD.P+T.5e-08)
 PSS009865|
European Ancestry|
39,443 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0307 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM014339 PGS002623
(biochemistry_VitaminD.P+T.5e-08)
 PSS009866|
South Asian Ancestry|
6,746 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.006 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM014388 PGS002672
(biochemistry_VitaminD.PolyFun-pred)
 PSS009863|
African Ancestry|
5,876 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model when combined with BOLT-LMM vs. covariates alone): 0.0073 age, sex, age*sex, assessment center, genotyping array, 10 PCs See biochemistry_VitaminD.mixweights file at http://data.broadinstitute.org/alkesgroup/polypred_results for combination weights
PPM014437 PGS002672
(biochemistry_VitaminD.PolyFun-pred)
 PSS009864|
East Asian Ancestry|
855 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model when combined with BOLT-LMM vs. covariates alone): 0.0049 age, sex, age*sex, assessment center, genotyping array, 10 PCs See biochemistry_VitaminD.mixweights file at http://data.broadinstitute.org/alkesgroup/polypred_results for combination weights
PPM014486 PGS002672
(biochemistry_VitaminD.PolyFun-pred)
 PSS009865|
European Ancestry|
39,443 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model when combined with BOLT-LMM vs. covariates alone): 0.0591 age, sex, age*sex, assessment center, genotyping array, 10 PCs See biochemistry_VitaminD.mixweights file at http://data.broadinstitute.org/alkesgroup/polypred_results for combination weights
PPM014535 PGS002672
(biochemistry_VitaminD.PolyFun-pred)
 PSS009866|
South Asian Ancestry|
6,746 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model when combined with BOLT-LMM vs. covariates alone): 0.0134 age, sex, age*sex, assessment center, genotyping array, 10 PCs See biochemistry_VitaminD.mixweights file at http://data.broadinstitute.org/alkesgroup/polypred_results for combination weights
PPM014584 PGS002721
(biochemistry_VitaminD.SBayesR)
 PSS009863|
African Ancestry|
5,876 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0024 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM014633 PGS002721
(biochemistry_VitaminD.SBayesR)
 PSS009864|
East Asian Ancestry|
855 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0048 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM014682 PGS002721
(biochemistry_VitaminD.SBayesR)
 PSS009865|
European Ancestry|
39,443 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0538 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM014731 PGS002721
(biochemistry_VitaminD.SBayesR)
 PSS009866|
South Asian Ancestry|
6,746 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Vitamin D — — Incremental R2 (full model vs. covariates alone): 0.0088 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM016078 PGS003174
(ExPRSweb_VitD_100021-irnt_LASSOSUM_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 0.0744 (0.109) — R²: 4e-05 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016081 PGS003175
(ExPRSweb_VitD_100021-irnt_PT_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 0.164 (0.109) — R²: 0.00028 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016079 PGS003176
(ExPRSweb_VitD_100021-irnt_PLINK_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 0.163 (0.109) — R²: 0.00029 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016077 PGS003177
(ExPRSweb_VitD_100021-irnt_DBSLMM_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 0.126 (0.109) — R²: 0.00017 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016080 PGS003178
(ExPRSweb_VitD_100021-irnt_PRSCS_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 0.114 (0.109) — R²: 0.00012 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016083 PGS003179
(ExPRSweb_VitD_100021-raw_LASSOSUM_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 0.171 (0.109) — R²: 0.00034 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016086 PGS003180
(ExPRSweb_VitD_100021-raw_PT_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 0.156 (0.107) — R²: 0.00034 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016084 PGS003181
(ExPRSweb_VitD_100021-raw_PLINK_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: -0.091 (0.109) — R²: 8e-05 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016082 PGS003182
(ExPRSweb_VitD_100021-raw_DBSLMM_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: -0.0108 (0.108) — R²: 5.73e-06 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016085 PGS003183
(ExPRSweb_VitD_100021-raw_PRSCS_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 0.124 (0.109) — R²: 0.00026 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016089 PGS003184
(ExPRSweb_VitD_29343764-GCST005367_LASSOSUM_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 1.37 (0.107) — R²: 0.0227 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016095 PGS003185
(ExPRSweb_VitD_29343764-GCST005367_PT_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 1.11 (0.107) — R²: 0.015 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016091 PGS003186
(ExPRSweb_VitD_29343764-GCST005367_PLINK_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 1.09 (0.107) — R²: 0.0145 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016087 PGS003187
(ExPRSweb_VitD_29343764-GCST005367_DBSLMM_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: -0.0179 (0.108) — R²: 2.68e-06 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016093 PGS003188
(ExPRSweb_VitD_29343764-GCST005367_PRSCS_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 1.15 (0.113) — R²: 0.0133 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016098 PGS003189
(ExPRSweb_VitD_30890-irnt_LASSOSUM_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 1.5 (0.106) — R²: 0.027 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016101 PGS003190
(ExPRSweb_VitD_30890-irnt_PT_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 1.44 (0.107) — R²: 0.0251 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016099 PGS003191
(ExPRSweb_VitD_30890-irnt_PLINK_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 1.47 (0.107) — R²: 0.0261 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016097 PGS003192
(ExPRSweb_VitD_30890-irnt_DBSLMM_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 0.523 (0.108) — R²: 0.00313 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016100 PGS003193
(ExPRSweb_VitD_30890-irnt_PRSCS_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 1.48 (0.108) — R²: 0.0252 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016103 PGS003194
(ExPRSweb_VitD_30890-raw_LASSOSUM_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 1.4 (0.107) — R²: 0.0235 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016106 PGS003195
(ExPRSweb_VitD_30890-raw_PT_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 1.49 (0.107) — R²: 0.0267 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016104 PGS003196
(ExPRSweb_VitD_30890-raw_PLINK_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 1.52 (0.107) — R²: 0.0275 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016102 PGS003197
(ExPRSweb_VitD_30890-raw_DBSLMM_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 1.17 (0.106) — R²: 0.0162 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016105 PGS003198
(ExPRSweb_VitD_30890-raw_PRSCS_MGI_20211120)
 PSS010018|
European Ancestry|
6,926 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 1.49 (0.108) — R²: 0.0259 SEX,AGE,Batch,PC1,PC2,PC3,PC4 —
PPM016090 PGS003199
(ExPRSweb_VitD_29343764-GCST005367_LASSOSUM_UKB_20211120)
 PSS010034|
European Ancestry|
186,680 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 3.4 (0.0476) — R²: 0.0264 Sex,birthYear,genotyping.array,PC1,PC2,PC3,PC4 —
PPM016096 PGS003200
(ExPRSweb_VitD_29343764-GCST005367_PT_UKB_20211120)
 PSS010034|
European Ancestry|
186,680 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 3.26 (0.0476) — R²: 0.024 Sex,birthYear,genotyping.array,PC1,PC2,PC3,PC4 —
PPM016092 PGS003201
(ExPRSweb_VitD_29343764-GCST005367_PLINK_UKB_20211120)
 PSS010034|
European Ancestry|
186,680 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 3.24 (0.0476) — R²: 0.0239 Sex,birthYear,genotyping.array,PC1,PC2,PC3,PC4 —
PPM016088 PGS003202
(ExPRSweb_VitD_29343764-GCST005367_DBSLMM_UKB_20211120)
 PSS010034|
European Ancestry|
186,680 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: -0.347 (0.0482) — R²: 0.00023 Sex,birthYear,genotyping.array,PC1,PC2,PC3,PC4 —
PPM016094 PGS003203
(ExPRSweb_VitD_29343764-GCST005367_PRSCS_UKB_20211120)
 PSS010034|
European Ancestry|
186,680 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Vitamin D β: 3.32 (0.0478) — R²: 0.026 Sex,birthYear,genotyping.array,PC1,PC2,PC3,PC4 —
PPM017482 PGS003554
(cont-decay-log_vitaminD)
 PSS010920|
European Ancestry|
18,261 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Vitamin D — — partial-R2: 0.05 sex, age, deprivation index, PC1-16 —
PPM017566 PGS003554
(cont-decay-log_vitaminD)
 PSS010836|
European Ancestry|
3,767 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Vitamin D — — partial-R2: 0.03 sex, age, deprivation index, PC1-16 —
PPM017650 PGS003554
(cont-decay-log_vitaminD)
 PSS010668|
European Ancestry|
5,901 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Vitamin D — — partial-R2: 0.05 sex, age, deprivation index, PC1-16 —
PPM017734 PGS003554
(cont-decay-log_vitaminD)
 PSS010584|
Greater Middle Eastern Ancestry|
1,009 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Vitamin D — — partial-R2: 0.04 sex, age, deprivation index, PC1-16 —
PPM017818 PGS003554
(cont-decay-log_vitaminD)
 PSS010248|
European Ancestry|
2,125 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Vitamin D — — partial-R2: 0.03 sex, age, deprivation index, PC1-16 —
PPM017902 PGS003554
(cont-decay-log_vitaminD)
 PSS010500|
South Asian Ancestry|
5,140 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Vitamin D — — partial-R2: 0.01 sex, age, deprivation index, PC1-16 —
PPM017986 PGS003554
(cont-decay-log_vitaminD)
 PSS010416|
East Asian Ancestry|
1,651 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Vitamin D — — partial-R2: 0.01 sex, age, deprivation index, PC1-16 —
PPM018154 PGS003554
(cont-decay-log_vitaminD)
 PSS010752|
African Ancestry|
3,541 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Vitamin D — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —
PPM018070 PGS003554
(cont-decay-log_vitaminD)
 PSS010332|
African Ancestry|
2,254 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Vitamin D — — partial-R2: 0.01 sex, age, deprivation index, PC1-16 —
PPM020459 PGS004344
(X30890.score)
 PSS011364|
European Ancestry|
56,192 individuals
 PGP000561 |
Jung H et al. Commun Biol (2024)
 Reported Trait: Vitamin D (nmol/L) — — PGS R2 (no covariates): 0.15613 — —

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
PSS011828 — — 5,885 individuals,
43.6 % Male samples
 Mean = 40.0 years Greater Middle Eastern (Middle Eastern, North African or Persian)
(Qatari)		 — QBB —
PSS010920 — — 18,261 individuals,
47.0 % Male samples
 Mean = 56.8 years
Sd = 8.0 years		 European white British UKB —
PSS010668 — — 5,901 individuals,
46.0 % Male samples
 Mean = 54.4 years
Sd = 8.4 years		 European Italian UKB —
PSS010416 — — 1,651 individuals,
33.0 % Male samples
 Mean = 52.4 years
Sd = 7.8 years		 East Asian Chinese UKB —
PSS001141 — — 1,632 individuals — European — QIMR —
PSS001142 — — 1,632 individuals — European — UKB —
PSS008798 — — 6,046 individuals — European Italy (South Europe) UKB —
PSS011443 — — 194 individuals Mean = 71.13 years
Sd = 4.82 years		 Greater Middle Eastern (Middle Eastern, North African or Persian)
(Lebanese)		 — NR —
PSS007914 — — 2,266 individuals — African American or Afro-Caribbean Carribean UKB —
PSS010836 — — 3,767 individuals,
39.0 % Male samples
 Mean = 54.2 years
Sd = 7.6 years		 European Polish UKB —
PSS008572 — — 1,036 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS009470 — — 18,172 individuals — European UK (+ Ireland) UKB —
PSS010584 — — 1,009 individuals,
61.0 % Male samples
 Mean = 52.1 years
Sd = 8.0 years		 Greater Middle Eastern (Middle Eastern, North African or Persian) Iranian UKB —
PSS010332 — — 2,254 individuals,
36.0 % Male samples
 Mean = 52.5 years
Sd = 8.1 years		 African American or Afro-Caribbean Caribbean UKB —
PSS010018 25-Hydroxyvitamin D, Total (LOINC: 1989-3); Quantitative — 6,926 individuals — European — MGI —
PSS009863 — — 5,876 individuals — African unspecified — UKB —
PSS009864 — — 855 individuals — East Asian — UKB —
PSS011762 — — 8,417 individuals — European — BBofA —
PSS010034 Field ID: 30890; Quantitative — 186,680 individuals — European — UKB —
PSS009244 — — 3,778 individuals — European Poland (NE Europe) UKB —
PSS008350 — — 5,186 individuals — South Asian India (South Asia) UKB —
PSS011364 — — 56,192 individuals — European — UKB —
PSS010752 — — 3,541 individuals,
46.0 % Male samples
 Mean = 51.9 years
Sd = 8.1 years		 African unspecified Nigerian UKB —
PSS010500 — — 5,140 individuals,
55.0 % Male samples
 Mean = 53.5 years
Sd = 8.5 years		 South Asian Indian UKB —
PSS010248 — — 2,125 individuals,
46.0 % Male samples
 Mean = 58.1 years
Sd = 7.1 years		 European Ashkenazi UKB —
PSS000787 — — 5,845 individuals — African unspecified — UKB —
PSS000788 — — 1,055 individuals — East Asian — UKB —
PSS000789 — — 22,617 individuals — European Non-British White UKB —
PSS000790 — — 6,425 individuals — South Asian — UKB —
PSS000791 — — 60,998 individuals — European
(British)		 — UKB —
PSS007216 — — 5,926 individuals — African unspecified — UKB —
PSS007217 — — 1,570 individuals — East Asian — UKB —
PSS007218 — — 22,820 individuals — European non-white British ancestry UKB —
PSS007219 — — 6,507 individuals — South Asian — UKB —
PSS007220 — — 61,724 individuals — European white British ancestry UKB Testing cohort (heldout set)
PSS009018 — — 3,569 individuals — African unspecified Nigeria (West Africa) UKB —
PSS008127 — — 1,662 individuals — East Asian China (East Asia) UKB —
PSS000803 — — 2,058 individuals — European Participants self-identifying as white MESA —
PSS009865 — — 39,443 individuals — European Non-British European UKB —
PSS009866 — — 6,746 individuals — South Asian — UKB —