Trait: menstrual cycle measurement

Experimental Factor Ontology (EFO) Information
Identifier EFO_0007786
Description quantification of some aspect's of a female's menstrual cycle such as its length
Trait category
Other measurement

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)
PGS001913
(portability-PLR_F_length_menstrual_cycle)
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Length of menstrual cycle menstrual cycle measurement 339
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001913/ScoringFiles/PGS001913.txt.gz
PGS002079
(portability-ldpred2_626.1)
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Irregular menstrual cycle/bleeding menstrual cycle measurement 719,789
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002079/ScoringFiles/PGS002079.txt.gz
PGS002128
(portability-ldpred2_F_irregular_menstrual_cycle)
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Length of menstrual cycle menstrual cycle measurement 414,081
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002128/ScoringFiles/PGS002128.txt.gz
PGS002129
(portability-ldpred2_F_length_menstrual_cycle)
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Length of menstrual cycle menstrual cycle measurement 491,888
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002129/ScoringFiles/PGS002129.txt.gz
PGS003506
(cont-decay-F_length_menstrual_cycle)
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Length of menstrual cycle menstrual cycle measurement 979,739
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003506/ScoringFiles/PGS003506.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
PPM010187 PGS001913
(portability-PLR_F_length_menstrual_cycle)
 PSS009373|
European Ancestry|
987 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): 0.0877 [0.0248, 0.1499] sex, age, birth date, deprivation index, 16 PCs —
PPM010188 PGS001913
(portability-PLR_F_length_menstrual_cycle)
 PSS009147|
European Ancestry|
308 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): 0.0665 [-0.0493, 0.1805] sex, age, birth date, deprivation index, 16 PCs —
PPM010189 PGS001913
(portability-PLR_F_length_menstrual_cycle)
 PSS008701|
European Ancestry|
538 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): 0.0619 [-0.0243, 0.1472] sex, age, birth date, deprivation index, 16 PCs —
PPM010190 PGS001913
(portability-PLR_F_length_menstrual_cycle)
 PSS008475|
Greater Middle Eastern Ancestry|
72 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): 0.1511 [-0.1243, 0.4048] sex, age, birth date, deprivation index, 16 PCs —
PPM010191 PGS001913
(portability-PLR_F_length_menstrual_cycle)
 PSS008253|
South Asian Ancestry|
402 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): 0.0823 [-0.0181, 0.181] sex, age, birth date, deprivation index, 16 PCs —
PPM010192 PGS001913
(portability-PLR_F_length_menstrual_cycle)
 PSS008031|
East Asian Ancestry|
197 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): 0.1249 [-0.0226, 0.2671] sex, age, birth date, deprivation index, 16 PCs —
PPM010193 PGS001913
(portability-PLR_F_length_menstrual_cycle)
 PSS007817|
African Ancestry|
211 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): -0.1436 [-0.2795, -0.002] sex, age, birth date, deprivation index, 16 PCs —
PPM010194 PGS001913
(portability-PLR_F_length_menstrual_cycle)
 PSS008921|
African Ancestry|
282 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): 0.0278 [-0.0935, 0.1482] sex, age, birth date, deprivation index, 16 PCs —
PPM011493 PGS002079
(portability-ldpred2_626.1)
 PSS009343|
European Ancestry|
10,063 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Irregular menstrual cycle/bleeding — — Partial Correlation (partial-r): 0.0369 [0.0173, 0.0564] sex, age, birth date, deprivation index, 16 PCs —
PPM011495 PGS002079
(portability-ldpred2_626.1)
 PSS008671|
European Ancestry|
3,394 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Irregular menstrual cycle/bleeding — — Partial Correlation (partial-r): 0.0311 [-0.0027, 0.0647] sex, age, birth date, deprivation index, 16 PCs —
PPM011496 PGS002079
(portability-ldpred2_626.1)
 PSS008445|
Greater Middle Eastern Ancestry|
441 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Irregular menstrual cycle/bleeding — — Partial Correlation (partial-r): 0.0755 [-0.0201, 0.1697] sex, age, birth date, deprivation index, 16 PCs —
PPM011497 PGS002079
(portability-ldpred2_626.1)
 PSS008225|
South Asian Ancestry|
2,690 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Irregular menstrual cycle/bleeding — — Partial Correlation (partial-r): 0.0716 [0.0337, 0.1092] sex, age, birth date, deprivation index, 16 PCs —
PPM011498 PGS002079
(portability-ldpred2_626.1)
 PSS008006|
East Asian Ancestry|
1,113 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Irregular menstrual cycle/bleeding — — Partial Correlation (partial-r): -0.0068 [-0.066, 0.0525] sex, age, birth date, deprivation index, 16 PCs —
PPM011499 PGS002079
(portability-ldpred2_626.1)
 PSS007790|
African Ancestry|
1,471 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Irregular menstrual cycle/bleeding — — Partial Correlation (partial-r): -0.0312 [-0.0825, 0.0202] sex, age, birth date, deprivation index, 16 PCs —
PPM011500 PGS002079
(portability-ldpred2_626.1)
 PSS008894|
African Ancestry|
1,972 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Irregular menstrual cycle/bleeding — — Partial Correlation (partial-r): 0.0036 [-0.0408, 0.0479] sex, age, birth date, deprivation index, 16 PCs —
PPM011494 PGS002079
(portability-ldpred2_626.1)
 PSS009117|
European Ancestry|
2,376 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Irregular menstrual cycle/bleeding — — Partial Correlation (partial-r): 0.0467 [0.0064, 0.0869] sex, age, birth date, deprivation index, 16 PCs —
PPM011884 PGS002128
(portability-ldpred2_F_irregular_menstrual_cycle)
 PSS008030|
East Asian Ancestry|
233 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): 0.0906 [-0.0441, 0.222] sex, age, birth date, deprivation index, 16 PCs —
PPM011879 PGS002128
(portability-ldpred2_F_irregular_menstrual_cycle)
 PSS009372|
European Ancestry|
1,185 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): 0.0848 [0.0275, 0.1415] sex, age, birth date, deprivation index, 16 PCs —
PPM011880 PGS002128
(portability-ldpred2_F_irregular_menstrual_cycle)
 PSS009146|
European Ancestry|
383 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): -0.0318 [-0.1342, 0.0712] sex, age, birth date, deprivation index, 16 PCs —
PPM011881 PGS002128
(portability-ldpred2_F_irregular_menstrual_cycle)
 PSS008700|
European Ancestry|
618 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): 0.0388 [-0.0415, 0.1187] sex, age, birth date, deprivation index, 16 PCs —
PPM011882 PGS002128
(portability-ldpred2_F_irregular_menstrual_cycle)
 PSS008474|
Greater Middle Eastern Ancestry|
80 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): 0.1866 [-0.0685, 0.4187] sex, age, birth date, deprivation index, 16 PCs —
PPM011883 PGS002128
(portability-ldpred2_F_irregular_menstrual_cycle)
 PSS008252|
South Asian Ancestry|
444 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): -0.0248 [-0.1197, 0.0705] sex, age, birth date, deprivation index, 16 PCs —
PPM011885 PGS002128
(portability-ldpred2_F_irregular_menstrual_cycle)
 PSS007816|
African Ancestry|
269 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): -0.0692 [-0.1917, 0.0553] sex, age, birth date, deprivation index, 16 PCs —
PPM011886 PGS002128
(portability-ldpred2_F_irregular_menstrual_cycle)
 PSS008920|
African Ancestry|
356 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): -0.0391 [-0.1454, 0.068] sex, age, birth date, deprivation index, 16 PCs —
PPM011887 PGS002129
(portability-ldpred2_F_length_menstrual_cycle)
 PSS009373|
European Ancestry|
987 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): 0.1022 [0.0394, 0.1641] sex, age, birth date, deprivation index, 16 PCs —
PPM011888 PGS002129
(portability-ldpred2_F_length_menstrual_cycle)
 PSS009147|
European Ancestry|
308 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): 0.157 [0.0424, 0.2676] sex, age, birth date, deprivation index, 16 PCs —
PPM011889 PGS002129
(portability-ldpred2_F_length_menstrual_cycle)
 PSS008701|
European Ancestry|
538 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): 0.0269 [-0.0593, 0.1127] sex, age, birth date, deprivation index, 16 PCs —
PPM011890 PGS002129
(portability-ldpred2_F_length_menstrual_cycle)
 PSS008475|
Greater Middle Eastern Ancestry|
72 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): 0.0688 [-0.2053, 0.3329] sex, age, birth date, deprivation index, 16 PCs —
PPM011891 PGS002129
(portability-ldpred2_F_length_menstrual_cycle)
 PSS008253|
South Asian Ancestry|
402 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): 0.1682 [0.0691, 0.2639] sex, age, birth date, deprivation index, 16 PCs —
PPM011892 PGS002129
(portability-ldpred2_F_length_menstrual_cycle)
 PSS008031|
East Asian Ancestry|
197 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): 0.1261 [-0.0213, 0.2682] sex, age, birth date, deprivation index, 16 PCs —
PPM011893 PGS002129
(portability-ldpred2_F_length_menstrual_cycle)
 PSS007817|
African Ancestry|
211 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): -0.0358 [-0.1765, 0.1064] sex, age, birth date, deprivation index, 16 PCs —
PPM011894 PGS002129
(portability-ldpred2_F_length_menstrual_cycle)
 PSS008921|
African Ancestry|
282 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Length of menstrual cycle — — Partial Correlation (partial-r): -0.0043 [-0.1252, 0.1167] sex, age, birth date, deprivation index, 16 PCs —
PPM017434 PGS003506
(cont-decay-F_length_menstrual_cycle)
 PSS010867|
European Ancestry|
1,768 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Length of menstrual cycle — — partial-R2: 0.01 sex, age, deprivation index, PC1-16 —
PPM017518 PGS003506
(cont-decay-F_length_menstrual_cycle)
 PSS010783|
European Ancestry|
589 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Length of menstrual cycle — — partial-R2: 0.02 sex, age, deprivation index, PC1-16 —
PPM017686 PGS003506
(cont-decay-F_length_menstrual_cycle)
 PSS010531|
Greater Middle Eastern Ancestry|
145 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Length of menstrual cycle — — partial-R2: 0.02 sex, age, deprivation index, PC1-16 —
PPM017770 PGS003506
(cont-decay-F_length_menstrual_cycle)
 PSS010195|
European Ancestry|
157 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Length of menstrual cycle — — partial-R2: 0.01 sex, age, deprivation index, PC1-16 —
PPM017854 PGS003506
(cont-decay-F_length_menstrual_cycle)
 PSS010447|
South Asian Ancestry|
724 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Length of menstrual cycle — — partial-R2: 0.02 sex, age, deprivation index, PC1-16 —
PPM017938 PGS003506
(cont-decay-F_length_menstrual_cycle)
 PSS010363|
East Asian Ancestry|
388 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Length of menstrual cycle — — partial-R2: 0.03 sex, age, deprivation index, PC1-16 —
PPM018022 PGS003506
(cont-decay-F_length_menstrual_cycle)
 PSS010279|
African Ancestry|
431 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Length of menstrual cycle — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —
PPM018106 PGS003506
(cont-decay-F_length_menstrual_cycle)
 PSS010699|
African Ancestry|
527 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Length of menstrual cycle — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —
PPM017602 PGS003506
(cont-decay-F_length_menstrual_cycle)
 PSS010615|
European Ancestry|
920 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Length of menstrual cycle — — partial-R2: 0.01 sex, age, deprivation index, PC1-16 —

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
PSS010783 — — 589 individuals,
0.0 % Male samples
 Mean = 45.7 years
Sd = 3.9 years		 European Polish UKB —
PSS008006 — — 1,113 individuals — East Asian China (East Asia) UKB —
PSS010531 — — 145 individuals,
0.0 % Male samples
 Mean = 45.9 years
Sd = 4.5 years		 Greater Middle Eastern (Middle Eastern, North African or Persian) Iranian UKB —
PSS010279 — — 431 individuals,
0.0 % Male samples
 Mean = 45.8 years
Sd = 3.8 years		 African American or Afro-Caribbean Caribbean UKB —
PSS008920 — — 356 individuals — African unspecified Nigeria (West Africa) UKB —
PSS008921 — — 282 individuals — African unspecified Nigeria (West Africa) UKB —
PSS008030 — — 233 individuals — East Asian China (East Asia) UKB —
PSS008671 — — 3,394 individuals — European Italy (South Europe) UKB —
PSS008031 — — 197 individuals — East Asian China (East Asia) UKB —
PSS007790 — — 1,471 individuals — African American or Afro-Caribbean Carribean UKB —
PSS010699 — — 527 individuals,
0.0 % Male samples
 Mean = 45.0 years
Sd = 3.6 years		 African unspecified Nigerian UKB —
PSS010447 — — 724 individuals,
0.0 % Male samples
 Mean = 45.2 years
Sd = 4.4 years		 South Asian Indian UKB —
PSS010195 — — 157 individuals,
0.0 % Male samples
 Mean = 47.0 years
Sd = 3.9 years		 European Ashkenazi UKB —
PSS008700 — — 618 individuals — European Italy (South Europe) UKB —
PSS008445 — — 441 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS008701 — — 538 individuals — European Italy (South Europe) UKB —
PSS009343 — — 10,063 individuals — European UK (+ Ireland) UKB —
PSS007816 — — 269 individuals — African American or Afro-Caribbean Carribean UKB —
PSS007817 — — 211 individuals — African American or Afro-Caribbean Carribean UKB —
PSS010867 — — 1,768 individuals,
0.0 % Male samples
 Mean = 45.9 years
Sd = 3.9 years		 European white British UKB —
PSS008474 — — 80 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS008475 — — 72 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS009372 — — 1,185 individuals — European UK (+ Ireland) UKB —
PSS009373 — — 987 individuals — European UK (+ Ireland) UKB —
PSS009117 — — 2,376 individuals — European Poland (NE Europe) UKB —
PSS010615 — — 920 individuals,
0.0 % Male samples
 Mean = 45.2 years
Sd = 3.8 years		 European Italian UKB —
PSS008225 — — 2,690 individuals — South Asian India (South Asia) UKB —
PSS010363 — — 388 individuals,
0.0 % Male samples
 Mean = 45.6 years
Sd = 3.8 years		 East Asian Chinese UKB —
PSS009146 — — 383 individuals — European Poland (NE Europe) UKB —
PSS009147 — — 308 individuals — European Poland (NE Europe) UKB —
PSS008252 — — 444 individuals — South Asian India (South Asia) UKB —
PSS008253 — — 402 individuals — South Asian India (South Asia) UKB —
PSS008894 — — 1,972 individuals — African unspecified Nigeria (West Africa) UKB —