Trait: age at menarche

Experimental Factor Ontology (EFO) Information
Identifier EFO_0004703
Description The age of onset of (human) menarche, the beginning of the first menstrual cycle in an individual
Trait category
Other measurement
Mapped terms 2 mapped terms
  • NCIt:C19666
  • SNOMEDCT:398700009

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)
PGS001915
(portability-PLR_F_menarche)
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Age when periods started (menarche) age at menarche 38,940
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001915/ScoringFiles/PGS001915.txt.gz
PGS002131
(portability-ldpred2_F_menarche)
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Age when periods started (menarche) age at menarche 854,735
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002131/ScoringFiles/PGS002131.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
PPM010203 PGS001915
(portability-PLR_F_menarche)
PSS009375|
European Ancestry|
5,746 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Age when periods started (menarche) Partial Correlation (partial-r): 0.2798 [0.2557, 0.3035] sex, age, birth date, deprivation index, 16 PCs
PPM010204 PGS001915
(portability-PLR_F_menarche)
PSS009149|
European Ancestry|
1,292 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Age when periods started (menarche) Partial Correlation (partial-r): 0.2408 [0.1884, 0.2919] sex, age, birth date, deprivation index, 16 PCs
PPM010205 PGS001915
(portability-PLR_F_menarche)
PSS008703|
European Ancestry|
1,920 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Age when periods started (menarche) Partial Correlation (partial-r): 0.2576 [0.2152, 0.2992] sex, age, birth date, deprivation index, 16 PCs
PPM010206 PGS001915
(portability-PLR_F_menarche)
PSS008477|
Greater Middle Eastern Ancestry|
221 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Age when periods started (menarche) Partial Correlation (partial-r): 0.1617 [0.0242, 0.2932] sex, age, birth date, deprivation index, 16 PCs
PPM010207 PGS001915
(portability-PLR_F_menarche)
PSS008255|
South Asian Ancestry|
1,460 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Age when periods started (menarche) Partial Correlation (partial-r): 0.0834 [0.0319, 0.1345] sex, age, birth date, deprivation index, 16 PCs
PPM010209 PGS001915
(portability-PLR_F_menarche)
PSS007819|
African Ancestry|
771 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Age when periods started (menarche) Partial Correlation (partial-r): 0.0913 [0.02, 0.1618] sex, age, birth date, deprivation index, 16 PCs
PPM010210 PGS001915
(portability-PLR_F_menarche)
PSS008923|
African Ancestry|
994 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Age when periods started (menarche) Partial Correlation (partial-r): 0.0772 [0.0145, 0.1393] sex, age, birth date, deprivation index, 16 PCs
PPM010208 PGS001915
(portability-PLR_F_menarche)
PSS008033|
East Asian Ancestry|
611 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Age when periods started (menarche) Partial Correlation (partial-r): 0.1105 [0.0302, 0.1894] sex, age, birth date, deprivation index, 16 PCs
PPM011908 PGS002131
(portability-ldpred2_F_menarche)
PSS008033|
East Asian Ancestry|
611 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Age when periods started (menarche) Partial Correlation (partial-r): 0.0879 [0.0074, 0.1673] sex, age, birth date, deprivation index, 16 PCs
PPM011903 PGS002131
(portability-ldpred2_F_menarche)
PSS009375|
European Ancestry|
5,746 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Age when periods started (menarche) Partial Correlation (partial-r): 0.2831 [0.2591, 0.3067] sex, age, birth date, deprivation index, 16 PCs
PPM011904 PGS002131
(portability-ldpred2_F_menarche)
PSS009149|
European Ancestry|
1,292 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Age when periods started (menarche) Partial Correlation (partial-r): 0.245 [0.1926, 0.296] sex, age, birth date, deprivation index, 16 PCs
PPM011905 PGS002131
(portability-ldpred2_F_menarche)
PSS008703|
European Ancestry|
1,920 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Age when periods started (menarche) Partial Correlation (partial-r): 0.2575 [0.215, 0.299] sex, age, birth date, deprivation index, 16 PCs
PPM011906 PGS002131
(portability-ldpred2_F_menarche)
PSS008477|
Greater Middle Eastern Ancestry|
221 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Age when periods started (menarche) Partial Correlation (partial-r): 0.1354 [-0.0027, 0.2685] sex, age, birth date, deprivation index, 16 PCs
PPM011907 PGS002131
(portability-ldpred2_F_menarche)
PSS008255|
South Asian Ancestry|
1,460 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Age when periods started (menarche) Partial Correlation (partial-r): 0.0945 [0.0431, 0.1454] sex, age, birth date, deprivation index, 16 PCs
PPM011909 PGS002131
(portability-ldpred2_F_menarche)
PSS007819|
African Ancestry|
771 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Age when periods started (menarche) Partial Correlation (partial-r): 0.1018 [0.0306, 0.1721] sex, age, birth date, deprivation index, 16 PCs
PPM011910 PGS002131
(portability-ldpred2_F_menarche)
PSS008923|
African Ancestry|
994 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Age when periods started (menarche) Partial Correlation (partial-r): 0.1087 [0.0462, 0.1703] sex, age, birth date, deprivation index, 16 PCs

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
PSS007819 771 individuals African American or Afro-Caribbean Carribean UKB
PSS008477 221 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB
PSS008255 1,460 individuals South Asian India (South Asia) UKB
PSS009375 5,746 individuals European UK (+ Ireland) UKB
PSS008923 994 individuals African unspecified Nigeria (West Africa) UKB
PSS009149 1,292 individuals European Poland (NE Europe) UKB
PSS008703 1,920 individuals European Italy (South Europe) UKB
PSS008033 611 individuals East Asian China (East Asia) UKB