Trait: carotid artery intima media thickness

Experimental Factor Ontology (EFO) Information
Identifier EFO_0007117
Description quantification of the thickness of tunica intima and tunica media, the innermost two layers of the wall of the carotid artery, usually by carotid ultrasound
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 Scoring File (FTP Link)
PGS001966
(portability-PLR_log_mean_carotid_IMT)
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Mean carotid IMT (intima-medial thickness) at 120/150/210/240 degrees carotid artery intima media thickness 11,600
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001966/ScoringFiles/PGS001966.txt.gz
PGS002184
(portability-ldpred2_log_mean_carotid_IMT)
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Mean carotid IMT (intima-medial thickness) at 120/150/210/240 degrees carotid artery intima media thickness 734,561
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002184/ScoringFiles/PGS002184.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
PPM012322 PGS002184
(portability-ldpred2_log_mean_carotid_IMT)
PSS008557|
Greater Middle Eastern Ancestry|
51 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean carotid IMT (intima-medial thickness) at 120/150/210/240 degrees Partial Correlation (partial-r): 0.1746 [-0.1916, 0.4981] sex, age, birth date, deprivation index, 16 PCs
PPM012326 PGS002184
(portability-ldpred2_log_mean_carotid_IMT)
PSS009003|
African Ancestry|
134 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean carotid IMT (intima-medial thickness) at 120/150/210/240 degrees Partial Correlation (partial-r): 0.2412 [0.06, 0.4071] sex, age, birth date, deprivation index, 16 PCs
PPM012325 PGS002184
(portability-ldpred2_log_mean_carotid_IMT)
PSS007899|
African Ancestry|
77 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean carotid IMT (intima-medial thickness) at 120/150/210/240 degrees Partial Correlation (partial-r): 0.1034 [-0.1615, 0.3544] sex, age, birth date, deprivation index, 16 PCs
PPM012324 PGS002184
(portability-ldpred2_log_mean_carotid_IMT)
PSS008112|
East Asian Ancestry|
143 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean carotid IMT (intima-medial thickness) at 120/150/210/240 degrees Partial Correlation (partial-r): 0.0882 [-0.0903, 0.2611] sex, age, birth date, deprivation index, 16 PCs
PPM012323 PGS002184
(portability-ldpred2_log_mean_carotid_IMT)
PSS008335|
South Asian Ancestry|
301 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean carotid IMT (intima-medial thickness) at 120/150/210/240 degrees Partial Correlation (partial-r): 0.1712 [0.0553, 0.2826] sex, age, birth date, deprivation index, 16 PCs
PPM012321 PGS002184
(portability-ldpred2_log_mean_carotid_IMT)
PSS008783|
European Ancestry|
516 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean carotid IMT (intima-medial thickness) at 120/150/210/240 degrees Partial Correlation (partial-r): 0.1925 [0.1062, 0.2758] sex, age, birth date, deprivation index, 16 PCs
PPM012320 PGS002184
(portability-ldpred2_log_mean_carotid_IMT)
PSS009229|
European Ancestry|
337 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean carotid IMT (intima-medial thickness) at 120/150/210/240 degrees Partial Correlation (partial-r): 0.2112 [0.1034, 0.314] sex, age, birth date, deprivation index, 16 PCs
PPM012319 PGS002184
(portability-ldpred2_log_mean_carotid_IMT)
PSS009455|
European Ancestry|
1,841 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean carotid IMT (intima-medial thickness) at 120/150/210/240 degrees Partial Correlation (partial-r): 0.2298 [0.1858, 0.2728] sex, age, birth date, deprivation index, 16 PCs
PPM010610 PGS001966
(portability-PLR_log_mean_carotid_IMT)
PSS009003|
African Ancestry|
134 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean carotid IMT (intima-medial thickness) at 120/150/210/240 degrees Partial Correlation (partial-r): 0.196 [0.0125, 0.3667] sex, age, birth date, deprivation index, 16 PCs
PPM010609 PGS001966
(portability-PLR_log_mean_carotid_IMT)
PSS007899|
African Ancestry|
77 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean carotid IMT (intima-medial thickness) at 120/150/210/240 degrees Partial Correlation (partial-r): 0.1213 [-0.1438, 0.3702] sex, age, birth date, deprivation index, 16 PCs
PPM010608 PGS001966
(portability-PLR_log_mean_carotid_IMT)
PSS008112|
East Asian Ancestry|
143 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean carotid IMT (intima-medial thickness) at 120/150/210/240 degrees Partial Correlation (partial-r): 0.1195 [-0.0588, 0.2904] sex, age, birth date, deprivation index, 16 PCs
PPM010607 PGS001966
(portability-PLR_log_mean_carotid_IMT)
PSS008335|
South Asian Ancestry|
301 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean carotid IMT (intima-medial thickness) at 120/150/210/240 degrees Partial Correlation (partial-r): 0.1582 [0.0419, 0.2702] sex, age, birth date, deprivation index, 16 PCs
PPM010606 PGS001966
(portability-PLR_log_mean_carotid_IMT)
PSS008557|
Greater Middle Eastern Ancestry|
51 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean carotid IMT (intima-medial thickness) at 120/150/210/240 degrees Partial Correlation (partial-r): 0.1742 [-0.192, 0.4978] sex, age, birth date, deprivation index, 16 PCs
PPM010605 PGS001966
(portability-PLR_log_mean_carotid_IMT)
PSS008783|
European Ancestry|
516 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean carotid IMT (intima-medial thickness) at 120/150/210/240 degrees Partial Correlation (partial-r): 0.1529 [0.0658, 0.2378] sex, age, birth date, deprivation index, 16 PCs
PPM010604 PGS001966
(portability-PLR_log_mean_carotid_IMT)
PSS009229|
European Ancestry|
337 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean carotid IMT (intima-medial thickness) at 120/150/210/240 degrees Partial Correlation (partial-r): 0.1687 [0.0597, 0.2738] sex, age, birth date, deprivation index, 16 PCs
PPM010603 PGS001966
(portability-PLR_log_mean_carotid_IMT)
PSS009455|
European Ancestry|
1,841 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Mean carotid IMT (intima-medial thickness) at 120/150/210/240 degrees Partial Correlation (partial-r): 0.1935 [0.1489, 0.2374] 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
PSS009003 134 individuals African unspecified Nigeria (West Africa) UKB
PSS008557 51 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB
PSS009229 337 individuals European Poland (NE Europe) UKB
PSS008335 301 individuals South Asian India (South Asia) UKB
PSS008112 143 individuals East Asian China (East Asia) UKB
PSS008783 516 individuals European Italy (South Europe) UKB
PSS009455 1,841 individuals European UK (+ Ireland) UKB
PSS007899 77 individuals African American or Afro-Caribbean Carribean UKB