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 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

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 : 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 : 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 : 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 : 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 : 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

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
PSS008539 781 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB
PSS009437 17,510 individuals European UK (+ Ireland) 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
PSS008583 792 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB
PSS009481 17,730 individuals European UK (+ Ireland) 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
PSS008765 5,704 individuals European Italy (South Europe) UKB