Trait: age at first sexual intercourse measurement

Experimental Factor Ontology (EFO) Information
Identifier EFO_0009749
Description A measurement of the age at which a person has the first sexual intercourse.
Trait category
Other measurement
Mapped term PMID:27089180

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)
PGS001007
(GBE_INI2139)
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Age at first sexual intercourse age at first sexual intercourse measurement 9,997
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001007/ScoringFiles/PGS001007.txt.gz
PGS001938
(portability-PLR_log_age_first_sex)
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Age first had sexual intercourse age at first sexual intercourse measurement 64,164
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001938/ScoringFiles/PGS001938.txt.gz
PGS002156
(portability-ldpred2_log_age_first_sex)
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Age first had sexual intercourse age at first sexual intercourse measurement 972,919
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002156/ScoringFiles/PGS002156.txt.gz
PGS002215
(portability-ldpred2_no_sex)
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Age first had sexual intercourse age at first sexual intercourse measurement 633,660
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002215/ScoringFiles/PGS002215.txt.gz
PGS003520
(cont-decay-log_age_first_sex)
 PGP000457 |
Ding Y et al. Nature (2023)
 Age first had sexual intercourse age at first sexual intercourse measurement 979,739
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003520/ScoringFiles/PGS003520.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
PPM007798 PGS001007
(GBE_INI2139)
 PSS004951|
African Ancestry|
4,771 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Age first had sexual intercourse — — R²: 0.01638 [0.01026, 0.0225]
Incremental R2 (full-covars): -0.00625
PGS R2 (no covariates): 0.0 [-0.00008, 0.00008]		 age, sex, UKB array type, Genotype PCs —
PPM007799 PGS001007
(GBE_INI2139)
 PSS004952|
East Asian Ancestry|
1,050 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Age first had sexual intercourse — — R²: 0.02181 [0.00812, 0.0355]
Incremental R2 (full-covars): -0.00042
PGS R2 (no covariates): 0.00235 [-0.00223, 0.00693]		 age, sex, UKB array type, Genotype PCs —
PPM007800 PGS001007
(GBE_INI2139)
 PSS004953|
European Ancestry|
21,597 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Age first had sexual intercourse — — R²: 0.05384 [0.04839, 0.0593]
Incremental R2 (full-covars): 0.02018
PGS R2 (no covariates): 0.02045 [0.01697, 0.02393]		 age, sex, UKB array type, Genotype PCs —
PPM007801 PGS001007
(GBE_INI2139)
 PSS004954|
South Asian Ancestry|
4,838 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Age first had sexual intercourse — — R²: 0.05962 [0.04945, 0.06979]
Incremental R2 (full-covars): 0.00524
PGS R2 (no covariates): 0.00685 [0.00321, 0.01049]		 age, sex, UKB array type, Genotype PCs —
PPM007802 PGS001007
(GBE_INI2139)
 PSS004955|
European Ancestry|
59,599 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Age first had sexual intercourse — — R²: 0.06968 [0.06597, 0.07339]
Incremental R2 (full-covars): 0.02181
PGS R2 (no covariates): 0.0245 [0.02219, 0.0268]		 age, sex, UKB array type, Genotype PCs —
PPM010379 PGS001938
(portability-PLR_log_age_first_sex)
 PSS009437|
European Ancestry|
17,510 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): 0.2244 [0.2103, 0.2384] sex, age, birth date, deprivation index, 16 PCs —
PPM010381 PGS001938
(portability-PLR_log_age_first_sex)
 PSS008765|
European Ancestry|
5,704 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): 0.162 [0.1366, 0.1872] sex, age, birth date, deprivation index, 16 PCs —
PPM010382 PGS001938
(portability-PLR_log_age_first_sex)
 PSS008539|
Greater Middle Eastern Ancestry|
781 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): 0.0725 [0.0014, 0.1428] sex, age, birth date, deprivation index, 16 PCs —
PPM010383 PGS001938
(portability-PLR_log_age_first_sex)
 PSS008317|
South Asian Ancestry|
3,788 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): 0.1471 [0.1157, 0.1782] sex, age, birth date, deprivation index, 16 PCs —
PPM010384 PGS001938
(portability-PLR_log_age_first_sex)
 PSS008094|
East Asian Ancestry|
1,127 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): 0.0776 [0.0188, 0.1359] sex, age, birth date, deprivation index, 16 PCs —
PPM010385 PGS001938
(portability-PLR_log_age_first_sex)
 PSS007881|
African Ancestry|
1,805 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): 0.0537 [0.0073, 0.0999] sex, age, birth date, deprivation index, 16 PCs —
PPM010386 PGS001938
(portability-PLR_log_age_first_sex)
 PSS008985|
African Ancestry|
2,741 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): 0.0705 [0.033, 0.1078] sex, age, birth date, deprivation index, 16 PCs —
PPM010380 PGS001938
(portability-PLR_log_age_first_sex)
 PSS009211|
European Ancestry|
3,425 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): 0.1979 [0.1654, 0.2299] sex, age, birth date, deprivation index, 16 PCs —
PPM012097 PGS002156
(portability-ldpred2_log_age_first_sex)
 PSS008765|
European Ancestry|
5,704 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): 0.1716 [0.1463, 0.1967] sex, age, birth date, deprivation index, 16 PCs —
PPM012098 PGS002156
(portability-ldpred2_log_age_first_sex)
 PSS008539|
Greater Middle Eastern Ancestry|
781 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): 0.0837 [0.0127, 0.1539] sex, age, birth date, deprivation index, 16 PCs —
PPM012095 PGS002156
(portability-ldpred2_log_age_first_sex)
 PSS009437|
European Ancestry|
17,510 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): 0.2443 [0.2304, 0.2582] sex, age, birth date, deprivation index, 16 PCs —
PPM012096 PGS002156
(portability-ldpred2_log_age_first_sex)
 PSS009211|
European Ancestry|
3,425 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): 0.2086 [0.1763, 0.2405] sex, age, birth date, deprivation index, 16 PCs —
PPM012099 PGS002156
(portability-ldpred2_log_age_first_sex)
 PSS008317|
South Asian Ancestry|
3,788 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): 0.1587 [0.1274, 0.1897] sex, age, birth date, deprivation index, 16 PCs —
PPM012100 PGS002156
(portability-ldpred2_log_age_first_sex)
 PSS008094|
East Asian Ancestry|
1,127 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): 0.0976 [0.0389, 0.1556] sex, age, birth date, deprivation index, 16 PCs —
PPM012101 PGS002156
(portability-ldpred2_log_age_first_sex)
 PSS007881|
African Ancestry|
1,805 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): 0.0626 [0.0163, 0.1087] sex, age, birth date, deprivation index, 16 PCs —
PPM012102 PGS002156
(portability-ldpred2_log_age_first_sex)
 PSS008985|
African Ancestry|
2,741 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): 0.0793 [0.0419, 0.1166] sex, age, birth date, deprivation index, 16 PCs —
PPM012567 PGS002215
(portability-ldpred2_no_sex)
 PSS009481|
European Ancestry|
17,730 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): 0.0313 [0.0166, 0.046] sex, age, birth date, deprivation index, 16 PCs —
PPM012570 PGS002215
(portability-ldpred2_no_sex)
 PSS008583|
Greater Middle Eastern Ancestry|
792 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): -0.0493 [-0.1194, 0.0213] sex, age, birth date, deprivation index, 16 PCs —
PPM012571 PGS002215
(portability-ldpred2_no_sex)
 PSS008361|
South Asian Ancestry|
3,837 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): -0.0125 [-0.0442, 0.0192] sex, age, birth date, deprivation index, 16 PCs —
PPM012572 PGS002215
(portability-ldpred2_no_sex)
 PSS008138|
East Asian Ancestry|
1,146 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): 0.015 [-0.0434, 0.0734] sex, age, birth date, deprivation index, 16 PCs —
PPM012573 PGS002215
(portability-ldpred2_no_sex)
 PSS007925|
African Ancestry|
1,855 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): 0.012 [-0.0338, 0.0578] sex, age, birth date, deprivation index, 16 PCs —
PPM012574 PGS002215
(portability-ldpred2_no_sex)
 PSS009029|
African Ancestry|
2,796 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): -0.0112 [-0.0484, 0.026] sex, age, birth date, deprivation index, 16 PCs —
PPM012568 PGS002215
(portability-ldpred2_no_sex)
 PSS009255|
European Ancestry|
3,466 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): 0.027 [-0.0064, 0.0603] sex, age, birth date, deprivation index, 16 PCs —
PPM012569 PGS002215
(portability-ldpred2_no_sex)
 PSS008809|
European Ancestry|
5,786 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Age first had sexual intercourse — — Partial Correlation (partial-r): 0.0161 [-0.0098, 0.0419] sex, age, birth date, deprivation index, 16 PCs —
PPM017448 PGS003520
(cont-decay-log_age_first_sex)
 PSS010883|
European Ancestry|
17,510 individuals
 PGP000457 |
Ding Y et al. Nature (2023)
 Reported Trait: Age first had sexual intercourse — — partial-R2: 0.05 sex, age, deprivation index, PC1-16 —
PPM017532 PGS003520
(cont-decay-log_age_first_sex)
 PSS010799|
European Ancestry|
3,426 individuals
 PGP000457 |
Ding Y et al. Nature (2023)
 Reported Trait: Age first had sexual intercourse — — partial-R2: 0.04 sex, age, deprivation index, PC1-16 —
PPM017700 PGS003520
(cont-decay-log_age_first_sex)
 PSS010547|
Greater Middle Eastern Ancestry|
781 individuals
 PGP000457 |
Ding Y et al. Nature (2023)
 Reported Trait: Age first had sexual intercourse — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —
PPM017784 PGS003520
(cont-decay-log_age_first_sex)
 PSS010211|
European Ancestry|
2,080 individuals
 PGP000457 |
Ding Y et al. Nature (2023)
 Reported Trait: Age first had sexual intercourse — — partial-R2: 0.03 sex, age, deprivation index, PC1-16 —
PPM017868 PGS003520
(cont-decay-log_age_first_sex)
 PSS010463|
South Asian Ancestry|
3,788 individuals
 PGP000457 |
Ding Y et al. Nature (2023)
 Reported Trait: Age first had sexual intercourse — — partial-R2: 0.02 sex, age, deprivation index, PC1-16 —
PPM017952 PGS003520
(cont-decay-log_age_first_sex)
 PSS010379|
East Asian Ancestry|
1,128 individuals
 PGP000457 |
Ding Y et al. Nature (2023)
 Reported Trait: Age first had sexual intercourse — — partial-R2: 0.01 sex, age, deprivation index, PC1-16 —
PPM018036 PGS003520
(cont-decay-log_age_first_sex)
 PSS010295|
African Ancestry|
1,805 individuals
 PGP000457 |
Ding Y et al. Nature (2023)
 Reported Trait: Age first had sexual intercourse — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —
PPM018120 PGS003520
(cont-decay-log_age_first_sex)
 PSS010715|
African Ancestry|
2,741 individuals
 PGP000457 |
Ding Y et al. Nature (2023)
 Reported Trait: Age first had sexual intercourse — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —
PPM017616 PGS003520
(cont-decay-log_age_first_sex)
 PSS010631|
European Ancestry|
5,575 individuals
 PGP000457 |
Ding Y et al. Nature (2023)
 Reported Trait: Age first had sexual intercourse — — partial-R2: 0.03 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
PSS009029 — — 2,796 individuals — African unspecified Nigeria (West Africa) UKB —
PSS007881 — — 1,805 individuals — African American or Afro-Caribbean Carribean UKB —
PSS008138 — — 1,146 individuals — East Asian China (East Asia) UKB —
PSS010799 — — 3,426 individuals,
38.0 % Male samples
 Mean = 54.2 years
Sd = 7.5 years		 European Polish UKB —
PSS010547 — — 781 individuals,
60.0 % Male samples
 Mean = 52.6 years
Sd = 7.9 years		 Greater Middle Eastern (Middle Eastern, North African or Persian) Iranian UKB —
PSS008539 — — 781 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS009437 — — 17,510 individuals — European UK (+ Ireland) UKB —
PSS010295 — — 1,805 individuals,
36.0 % Male samples
 Mean = 51.7 years
Sd = 7.7 years		 African American or Afro-Caribbean Caribbean UKB —
PSS004951 — — 4,771 individuals — African unspecified — UKB —
PSS004952 — — 1,050 individuals — East Asian — UKB —
PSS004953 — — 21,597 individuals — European non-white British ancestry UKB —
PSS004954 — — 4,838 individuals — South Asian — UKB —
PSS004955 — — 59,599 individuals — European white British ancestry UKB Testing cohort (heldout set)
PSS008809 — — 5,786 individuals — European Italy (South Europe) UKB —
PSS007925 — — 1,855 individuals — African American or Afro-Caribbean Carribean UKB —
PSS009211 — — 3,425 individuals — European Poland (NE Europe) UKB —
PSS008317 — — 3,788 individuals — South Asian India (South Asia) UKB —
PSS010715 — — 2,741 individuals,
48.0 % Male samples
 Mean = 51.1 years
Sd = 7.7 years		 African unspecified Nigerian UKB —
PSS010463 — — 3,788 individuals,
58.0 % Male samples
 Mean = 52.4 years
Sd = 8.3 years		 South Asian Indian UKB —
PSS008583 — — 792 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS009481 — — 17,730 individuals — European UK (+ Ireland) UKB —
PSS010211 — — 2,080 individuals,
45.0 % Male samples
 Mean = 58.0 years
Sd = 7.1 years		 European Ashkenazi UKB —
PSS008985 — — 2,741 individuals — African unspecified Nigeria (West Africa) UKB —
PSS008094 — — 1,127 individuals — East Asian China (East Asia) UKB —
PSS009255 — — 3,466 individuals — European Poland (NE Europe) UKB —
PSS008361 — — 3,837 individuals — South Asian India (South Asia) UKB —
PSS010883 — — 17,510 individuals,
46.0 % Male samples
 Mean = 56.5 years
Sd = 7.9 years		 European white British UKB —
PSS010631 — — 5,575 individuals,
45.0 % Male samples
 Mean = 54.2 years
Sd = 8.3 years		 European Italian UKB —
PSS010379 — — 1,128 individuals,
36.0 % Male samples
 Mean = 51.7 years
Sd = 7.7 years		 East Asian Chinese UKB —
PSS008765 — — 5,704 individuals — European Italy (South Europe) UKB —