PGS Publication: PGP000045

Publication Information (EuropePMC)
Title An Examination of the Relationship between Lipid Levels and Associated Genetic Markers across Racial/Ethnic Populations in the Multi-Ethnic Study of Atherosclerosis.
PubMed ID 25951326(Europe PMC)
doi 10.1371/journal.pone.0126361
Publication Date May 7, 2015
Journal PLoS One
Author(s) Johnson L, Zhu J, Scott ER, Wineinger NE.
Released in PGS: Feb. 12, 2020

Associated Polygenic Score(s)

PGS Developed By This Publication

Polygenic Score (PGS) ID PGS Name PGS Publication (PGP) ID Reported Trait Mapped Trait(s) (Ontology) Number of Variants PGS Scoring File (FTP Link)
PGS000060 GRS_HDL PGP000045 Johnson L et al. PLoS One (2015) high-density lipoprotein (HDL) cholesterol high density lipoprotein cholesterol measurement 46 http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000060/ScoringFiles/PGS000060.txt.gz
PGS000061 GRS_LDL PGP000045 Johnson L et al. PLoS One (2015) low-density lipoprotein (LDL) cholesterol low density lipoprotein cholesterol measurement 37 http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000061/ScoringFiles/PGS000061.txt.gz
PGS000062 GRS_TC PGP000045 Johnson L et al. PLoS One (2015) total cholesterol total cholesterol measurement 52 http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000062/ScoringFiles/PGS000062.txt.gz
PGS000063 GRS_TG PGP000045 Johnson L et al. PLoS One (2015) triglycerides triglyceride measurement 32 http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000063/ScoringFiles/PGS000063.txt.gz

PGS 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 ID)
Evaluated Score PGS Sample Set ID
(PSS ID)
Performance Source Trait PGS Effect Sizes
(per SD change)
PGS Classification Metrics Other Metrics Covariates Included in the Model PGS Performance: Other Relevant Information
PPM000151 PGS000060 (GRS_HDL) PSS000098 PGP000045
Johnson L et al. (2015)
Reported Trait: Serum high-density lipoprotein (HDL) levels β: 8.39 Beta (p-value): 2.76e-06 age, age^2, sex, GRS_LDL, GRS_TC, GRS_TG Association (p-value; unadjusted for covariates) < 0.001
PPM000152 PGS000060 (GRS_HDL) PSS000097 PGP000045
Johnson L et al. (2015)
Reported Trait: Serum high-density lipoprotein (HDL) levels β: 15.58 Beta (p-value): 2.17e-07 age, age^2, sex, GRS_LDL, GRS_TC, GRS_TG Association (p-value; unadjusted for covariates) < 0.001
PPM000153 PGS000060 (GRS_HDL) PSS000096 PGP000045
Johnson L et al. (2015)
Reported Trait: Serum high-density lipoprotein (HDL) levels β: 7.99 Beta (p-value): 0.00036 age, age^2, sex, GRS_LDL, GRS_TC, GRS_TG Association (p-value; unadjusted for covariates) < 0.001
PPM000154 PGS000060 (GRS_HDL) PSS000099 PGP000045
Johnson L et al. (2015)
Reported Trait: Serum high-density lipoprotein (HDL) levels β: 10.97 Beta (p-value): 6.48e-10 age, age^2, sex, GRS_LDL, GRS_TC, GRS_TG Association (p-value; unadjusted for covariates) < 0.001
PPM000155 PGS000061 (GRS_LDL) PSS000098 PGP000045
Johnson L et al. (2015)
Reported Trait: Serum low-density lipoprotein (LDL) levels β: 15.0 Beta (p-value): 0.0352 age, age^2, sex, GRS_HDL, GRS_TC, GRS_TG Association (p-value; unadjusted for covariates) < 0.001
PPM000156 PGS000061 (GRS_LDL) PSS000097 PGP000045
Johnson L et al. (2015)
Reported Trait: Serum low-density lipoprotein (LDL) levels β: 5.58 Beta (p-value): 0.697 age, age^2, sex, GRS_HDL, GRS_TC, GRS_TG Association (p-value; unadjusted for covariates) < 0.001
PPM000157 PGS000061 (GRS_LDL) PSS000096 PGP000045
Johnson L et al. (2015)
Reported Trait: Serum low-density lipoprotein (LDL) levels β: 30.04 Beta (p-value): 0.00282 age, age^2, sex, GRS_HDL, GRS_TC, GRS_TG Association (p-value; unadjusted for covariates) < 0.001
PPM000158 PGS000061 (GRS_LDL) PSS000099 PGP000045
Johnson L et al. (2015)
Reported Trait: Serum low-density lipoprotein (LDL) levels β: 42.86 Beta (p-value): 2e-05 age, age^2, sex, GRS_HDL, GRS_TC, GRS_TG Association (p-value; unadjusted for covariates) < 0.001
PPM000159 PGS000062 (GRS_TC) PSS000098 PGP000045
Johnson L et al. (2015)
Reported Trait: Serum total cholesterol (TC) levels β: 20.69 Beta (p-value): 0.0108 age, age^2, sex, GRS_HDL, GRS_LDL, GRS_TG Association (p-value; unadjusted for covariates) < 0.001
PPM000160 PGS000062 (GRS_TC) PSS000097 PGP000045
Johnson L et al. (2015)
Reported Trait: Serum total cholesterol (TC) levels β: 8.57 Beta (p-value): 0.583 age, age^2, sex, GRS_HDL, GRS_LDL, GRS_TG Association (p-value; unadjusted for covariates) < 0.001
PPM000161 PGS000062 (GRS_TC) PSS000096 PGP000045
Johnson L et al. (2015)
Reported Trait: Serum total cholesterol (TC) levels β: 1.99 Beta (p-value): 0.852 age, age^2, sex, GRS_HDL, GRS_LDL, GRS_TG Association (p-value; unadjusted for covariates) < 0.001
PPM000162 PGS000062 (GRS_TC) PSS000099 PGP000045
Johnson L et al. (2015)
Reported Trait: Serum total cholesterol (TC) levels β: -2.62 Beta (p-value): 0.815 age, age^2, sex, GRS_HDL, GRS_LDL, GRS_TG Association (p-value; unadjusted for covariates) < 0.001
PPM000163 PGS000063 (GRS_TG) PSS000098 PGP000045
Johnson L et al. (2015)
Reported Trait: Serum triglyceride (TG) levels β: 0.464 Beta (p-value): 1.71e-11 age, age^2, sex, GRS_HDL, GRS_LDL, GRS_TC Association (p-value; unadjusted for covariates) < 0.001
PPM000164 PGS000063 (GRS_TG) PSS000097 PGP000045
Johnson L et al. (2015)
Reported Trait: Serum triglyceride (TG) levels β: 0.337 Beta (p-value): 0.0107 age, age^2, sex, GRS_HDL, GRS_LDL, GRS_TC Association (p-value; unadjusted for covariates) < 0.001
PPM000166 PGS000063 (GRS_TG) PSS000099 PGP000045
Johnson L et al. (2015)
Reported Trait: Serum triglyceride (TG) levels β: 0.5 Beta (p-value): 1.09e-10 age, age^2, sex, GRS_HDL, GRS_LDL, GRS_TC Association (p-value; unadjusted for covariates) < 0.001
PPM000165 PGS000063 (GRS_TG) PSS000096 PGP000045
Johnson L et al. (2015)
Reported Trait: Serum triglyceride (TG) levels β: 0.047 Beta (p-value): 0.526 age, age^2, sex, GRS_HDL, GRS_LDL, GRS_TC

Evaluated Samples

PGS Sample Set ID
(PSS ID)
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
PSS000097 Lipid levels are represented in mg/dL, individuals on any lipid-lowering medication (n = 1,018) were omitted from all analyses. 666 individuals,
50.15 % Male samples
Mean = 61.5 years East Asian MESA MESA Classic Cohort
PSS000098 Lipid levels are represented in mg/dL, individuals on any lipid-lowering medication (n = 1,018) were omitted from all analyses. 2,063 individuals,
46.78 % Male samples
Mean = 62.09 years European MESA MESA Classic Cohort
PSS000099 Lipid levels are represented in mg/dL, individuals on any lipid-lowering medication (n = 1,018) were omitted from all analyses. 1,256 individuals,
48.89 % Male samples
Mean = 60.65 years Hispanic or Latin American MESA MESA Classic Cohort
PSS000096 Lipid levels are represented in mg/dL, individuals on any lipid-lowering medication (n = 1,018) were omitted from all analyses. 1,355 individuals,
46.2 % Male samples
Mean = 61.68 years African American or Afro-Caribbean MESA MESA Classic Cohort