Trait: estradiol measurement

Experimental Factor Ontology (EFO) Information
Identifier EFO_0004697
Description Is a quantification of circulating estradiol a circulating steriod sex hormone.
Trait category
Other measurement
Synonyms 3 synonyms
  • estradiol levels
  • oestrogen level
  • oestrogen levels
Mapped terms 2 mapped terms
  • NCIt:C74782
  • SNOMEDCT:37538009

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 Scoring File (FTP Link)
PGS001182
(GBE_BIN10030800)
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Estradiol [> 212 pmol/L] estradiol measurement 351
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001182/ScoringFiles/PGS001182.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
PPM008599 PGS001182
(GBE_BIN10030800)
PSS003617|
African Ancestry|
5,634 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Oestradiol > 212 pmol/L AUROC: 0.84561 [0.83153, 0.85969] : 0.36666
Incremental AUROC (full-covars): 0.0004
PGS R2 (no covariates): 0.00269
PGS AUROC (no covariates): 0.52894 [0.51075, 0.54713]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008600 PGS001182
(GBE_BIN10030800)
PSS003618|
East Asian Ancestry|
1,519 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Oestradiol > 212 pmol/L AUROC: 0.87744 [0.85387, 0.90101] : 0.4381
Incremental AUROC (full-covars): 0.00067
PGS R2 (no covariates): 0.00244
PGS AUROC (no covariates): 0.52764 [0.49274, 0.56254]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008601 PGS001182
(GBE_BIN10030800)
PSS003619|
European Ancestry|
22,152 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Oestradiol > 212 pmol/L AUROC: 0.86243 [0.85486, 0.87001] : 0.40572
Incremental AUROC (full-covars): 0.00045
PGS R2 (no covariates): 0.00134
PGS AUROC (no covariates): 0.52174 [0.51159, 0.5319]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008602 PGS001182
(GBE_BIN10030800)
PSS003620|
South Asian Ancestry|
6,943 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Oestradiol > 212 pmol/L AUROC: 0.84655 [0.8301, 0.86301] : 0.36479
Incremental AUROC (full-covars): -0.00035
PGS R2 (no covariates): 1e-05
PGS AUROC (no covariates): 0.50081 [0.48154, 0.52008]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008603 PGS001182
(GBE_BIN10030800)
PSS003621|
European Ancestry|
59,957 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Oestradiol > 212 pmol/L AUROC: 0.85144 [0.84586, 0.85701] : 0.36546
Incremental AUROC (full-covars): 0.00059
PGS R2 (no covariates): 0.00121
PGS AUROC (no covariates): 0.52103 [0.51414, 0.52793]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method

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
PSS003617
[
  • 1,208 cases
  • , 4,426 controls
]
African unspecified UKB
PSS003618
[
  • 309 cases
  • , 1,210 controls
]
East Asian UKB
PSS003619
[
  • 3,703 cases
  • , 18,449 controls
]
European non-white British ancestry UKB
PSS003620
[
  • 1,023 cases
  • , 5,920 controls
]
South Asian UKB
PSS003621
[
  • 7,653 cases
  • , 52,304 controls
]
European white British ancestry UKB Testing cohort (heldout set)