Polygenic Score (PGS) ID: PGS000899

Predicted Trait
Reported Trait Coronary heart disease
Mapped Trait(s) coronary artery disease (EFO_0001645)
Released in PGS Catalog: Sept. 17, 2021
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PGS obtained from the Catalog should be cited appropriately, and used in accordance with any licensing restrictions set by the authors. See EBI Terms of Use (https://www.ebi.ac.uk/about/terms-of-use/) for additional details.

Score Details

Score Construction
PGS Name PRS176_CHD
Development Method
Name Two sets of SNPS: (1) genome-wide significant SNPs, (2) SNPs in low linkage disequilibrium
Parameters (1) P < 5e-8, (2) r^2 < 0.2
Variants
Original Genome Build GRCh37
Number of Variants 176
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000232
Citation (link to publication) Feitosa MF et al. Circ Genom Precis Med (2021)
Ancestry Distribution
Source of Variant
Associations (GWAS)
Not Reported: 63.8%
European: 17%
Multi-ancestry (including European): 15%
  • European
  • South Asian
South Asian: 1.9%
East Asian: 1.3%
African: 0.6%
Hispanic or Latin American: 0.2%
Greater Middle Eastern: 0.1%
1,716,874 individuals (100%)
PGS Evaluation
European: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
Europe PMC: 28530674
[
  • 14,267 cases
  • , 16,167 controls
]
 European CCHS, CGPS, CIHDS, EPIC
Europe PMC: 28530674
[
  • 4,129 cases
  • , 6,369 controls
]
,
62.83 % Male samples
 East Asian TaiChi
Europe PMC: 28530674
[
  • 3,950 cases
  • , 3,581 controls
]
 South Asian BRAVE, PROMIS
Europe PMC: 28530674
[
  • 2,100 cases
  • , 5,746 controls
]
 African American or Afro-Caribbean ARIC, MIGen, WHI
Europe PMC: 28530674
[
  • 63,746 cases
  • , 130,681 controls
]
 European, South Asian CARDIoGRAMplusC4D
GWAS Catalog: GCST007990
Europe PMC: 28714974
 120,286 individuals European CARDIoGRAMplusC4D, UKB
GWAS Catalog: GCST003116
Europe PMC: 26343387
 3,139 individuals African American or Afro-Caribbean 41 cohorts
  • ADVANCE
  • ,AGES
  • ,AIDHS
  • ,ARIC
  • ,BAS
  • ,BioMe
  • ,CARDIOGENICS
  • ,CAS
  • ,CCGB
  • ,COROGENE
  • ,DUKE_2
  • ,EGCUT
  • ,FGENTCARD
  • ,FHS
  • ,FINRISK
  • ,FamHS
  • ,GENRIC
  • ,GerMIFS
  • ,GoDARTS
  • ,HPS
  • ,HSDS
  • ,HSIEA
  • ,ITH
  • ,LIFE-HEART
  • ,LOLIPOP
  • ,LURIC
  • ,MAYO-VDB
  • ,MIGen
  • ,MedSTAR
  • ,OHGS
  • ,PIVUS
  • ,PROCARDIS
  • ,PROMIS
  • ,PROSPER
  • ,PennCATH
  • ,RS
  • ,SDS
  • ,TwinGene
  • ,ULSAM
  • ,WGHS
  • ,WTCCC
GWAS Catalog: GCST003116
Europe PMC: 26343387
 4,095 individuals Hispanic or Latin American 41 cohorts
  • ADVANCE
  • ,AGES
  • ,AIDHS
  • ,ARIC
  • ,BAS
  • ,BioMe
  • ,CARDIOGENICS
  • ,CAS
  • ,CCGB
  • ,COROGENE
  • ,DUKE_2
  • ,EGCUT
  • ,FGENTCARD
  • ,FHS
  • ,FINRISK
  • ,FamHS
  • ,GENRIC
  • ,GerMIFS
  • ,GoDARTS
  • ,HPS
  • ,HSDS
  • ,HSIEA
  • ,ITH
  • ,LIFE-HEART
  • ,LOLIPOP
  • ,LURIC
  • ,MAYO-VDB
  • ,MIGen
  • ,MedSTAR
  • ,OHGS
  • ,PIVUS
  • ,PROCARDIS
  • ,PROMIS
  • ,PROSPER
  • ,PennCATH
  • ,RS
  • ,SDS
  • ,TwinGene
  • ,ULSAM
  • ,WGHS
  • ,WTCCC
GWAS Catalog: GCST003116
Europe PMC: 26343387
 11,323 individuals East Asian 41 cohorts
  • ADVANCE
  • ,AGES
  • ,AIDHS
  • ,ARIC
  • ,BAS
  • ,BioMe
  • ,CARDIOGENICS
  • ,CAS
  • ,CCGB
  • ,COROGENE
  • ,DUKE_2
  • ,EGCUT
  • ,FGENTCARD
  • ,FHS
  • ,FINRISK
  • ,FamHS
  • ,GENRIC
  • ,GerMIFS
  • ,GoDARTS
  • ,HPS
  • ,HSDS
  • ,HSIEA
  • ,ITH
  • ,LIFE-HEART
  • ,LOLIPOP
  • ,LURIC
  • ,MAYO-VDB
  • ,MIGen
  • ,MedSTAR
  • ,OHGS
  • ,PIVUS
  • ,PROCARDIS
  • ,PROMIS
  • ,PROSPER
  • ,PennCATH
  • ,RS
  • ,SDS
  • ,TwinGene
  • ,ULSAM
  • ,WGHS
  • ,WTCCC
GWAS Catalog: GCST003116
Europe PMC: 26343387
 25,557 individuals South Asian 41 cohorts
  • ADVANCE
  • ,AGES
  • ,AIDHS
  • ,ARIC
  • ,BAS
  • ,BioMe
  • ,CARDIOGENICS
  • ,CAS
  • ,CCGB
  • ,COROGENE
  • ,DUKE_2
  • ,EGCUT
  • ,FGENTCARD
  • ,FHS
  • ,FINRISK
  • ,FamHS
  • ,GENRIC
  • ,GerMIFS
  • ,GoDARTS
  • ,HPS
  • ,HSDS
  • ,HSIEA
  • ,ITH
  • ,LIFE-HEART
  • ,LOLIPOP
  • ,LURIC
  • ,MAYO-VDB
  • ,MIGen
  • ,MedSTAR
  • ,OHGS
  • ,PIVUS
  • ,PROCARDIS
  • ,PROMIS
  • ,PROSPER
  • ,PennCATH
  • ,RS
  • ,SDS
  • ,TwinGene
  • ,ULSAM
  • ,WGHS
  • ,WTCCC
GWAS Catalog: GCST003116
Europe PMC: 26343387
 141,217 individuals European 41 cohorts
  • ADVANCE
  • ,AGES
  • ,AIDHS
  • ,ARIC
  • ,BAS
  • ,BioMe
  • ,CARDIOGENICS
  • ,CAS
  • ,CCGB
  • ,COROGENE
  • ,DUKE_2
  • ,EGCUT
  • ,FGENTCARD
  • ,FHS
  • ,FINRISK
  • ,FamHS
  • ,GENRIC
  • ,GerMIFS
  • ,GoDARTS
  • ,HPS
  • ,HSDS
  • ,HSIEA
  • ,ITH
  • ,LIFE-HEART
  • ,LOLIPOP
  • ,LURIC
  • ,MAYO-VDB
  • ,MIGen
  • ,MedSTAR
  • ,OHGS
  • ,PIVUS
  • ,PROCARDIS
  • ,PROMIS
  • ,PROSPER
  • ,PennCATH
  • ,RS
  • ,SDS
  • ,TwinGene
  • ,ULSAM
  • ,WGHS
  • ,WTCCC
GWAS Catalog: GCST005195
Europe PMC: 29212778
 547,261 individuals Not reported CARDIoGRAMplusC4D, UKB
GWAS Catalog: GCST005194
Europe PMC: 29212778
 296,525 individuals NR UKB
GWAS Catalog: GCST004787
Europe PMC: 28714975
 63,731 individuals European, NR NR
GWAS Catalog: GCST003116
Europe PMC: 26343387
 2,268 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) 40 cohorts
  • ADVANCE
  • ,AGES
  • ,AIDHS
  • ,ARIC
  • ,BAS
  • ,BioMe
  • ,CARDIOGENICS
  • ,CAS
  • ,CCGB
  • ,COROGENE
  • ,DUKE_2
  • ,EGCUT
  • ,FGENTCARD
  • ,FHS
  • ,FINRISK
  • ,FamHS
  • ,GENRIC
  • ,GerMIFS
  • ,GoDARTS
  • ,HPS
  • ,HSDS
  • ,HSIEA
  • ,ITH
  • ,LIFE-HEART
  • ,LOLIPOP
  • ,LURIC
  • ,MAYO-VDB
  • ,MIGen
  • ,MedSTAR
  • ,OHGS
  • ,PIVUS
  • ,PROCARDIS
  • ,PROMIS
  • ,PROSPER
  • ,PennCATH
  • ,RS
  • ,TwinGene
  • ,ULSAM
  • ,WGHS
  • ,WTCCC
GWAS Catalog: GCST005196
Europe PMC: 29212778
 250,736 individuals Not reported CARDIoGRAMplusC4D

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) 		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
PPM002641 PSS001168|
European Ancestry|
7,403 individuals
 PGP000232 |
Feitosa MF et al. Circ Genom Precis Med (2021)
 Reported Trait: Prevalent coronary heart disease age-at-onset HR: 1.35 [1.26, 1.45] — — Age, sex, study, type II diabetes, hypertension, high density lipoprotein cholesterol, low density lipoprotein cholesterol, waist circumference, current cigarette smoking, current alcohol drinking. —
PPM002642 PSS001168|
European Ancestry|
7,403 individuals
 PGP000232 |
Feitosa MF et al. Circ Genom Precis Med (2021)
 Reported Trait: Prevalent coronary heart disease age-at-onset HR: 1.7 [1.41, 2.05] — — Age, sex, study, PRS*sex, PRS*LLFS, PRS*FamnHS-High risk, type II diabetes, hypertension, high density lipoprotein cholesterol, low density lipoprotein cholesterol, waist circumference, current cigarette smoking, current alcohol drinking. —
PPM002643 PSS001168|
European Ancestry|
7,403 individuals
 PGP000232 |
Feitosa MF et al. Circ Genom Precis Med (2021)
 Reported Trait: Prevalent coronary heart disease age-at-onset HR: 1.75 [1.16, 2.65] — — Age, sex, study, PRS*LLFS, PRS*FamnHS-High risk, type II diabetes, hypertension, high density lipoprotein cholesterol, low density lipoprotein cholesterol, menopause, waist circumference, current cigarette smoking, current alcohol drinking. —
PPM002644 PSS001168|
European Ancestry|
7,403 individuals
 PGP000232 |
Feitosa MF et al. Circ Genom Precis Med (2021)
 Reported Trait: Prevalent coronary heart disease age-at-onset (males) HR: 1.57 [1.28, 1.92] — — Age, study, PRS*LLFS, PRS*FamnHS-High risk, type II diabetes, hypertension, high density lipoprotein cholesterol, low density lipoprotein cholesterol, waist circumference, current cigarette smoking, current alcohol drinking. —
PPM002645 PSS001168|
European Ancestry|
7,403 individuals
 PGP000232 |
Feitosa MF et al. Circ Genom Precis Med (2021)
 Reported Trait: Prevalent coronary heart disease age-at-onset (males) HR: 1.42 [1.3, 1.54] — — Age, study, type II diabetes, hypertension, high density lipoprotein cholesterol, low density lipoprotein cholesterol, waist circumference, current cigarette smoking, current alcohol drinking. —
PPM002647 PSS001168|
European Ancestry|
7,403 individuals
 PGP000232 |
Feitosa MF et al. Circ Genom Precis Med (2021)
 Reported Trait: Prevalent coronary heart disease age-at-onset (females) HR: 1.18 [1.04, 1.34] — — Age, study, type II diabetes, hypertension, high density lipoprotein cholesterol, low density lipoprotein cholesterol, waist circumference, current cigarette smoking, current alcohol drinking. —
PPM002640 PSS001168|
European Ancestry|
7,403 individuals
 PGP000232 |
Feitosa MF et al. Circ Genom Precis Med (2021)
 Reported Trait: Prevalent coronary heart disease age-at-onset HR: 1.6 [1.33, 1.92] — — Age, sex, study, PRS*LLFS, PRS*FamnHS-High risk, type II diabetes, hypertension, high density lipoprotein cholesterol, low density lipoprotein cholesterol, waist circumference, current cigarette smoking, current alcohol drinking. —
PPM002646 PSS001168|
European Ancestry|
7,403 individuals
 PGP000232 |
Feitosa MF et al. Circ Genom Precis Med (2021)
 Reported Trait: Prevalent coronary heart disease age-at-onset (females) HR: 1.76 [1.16, 2.68] — — Age, study, PRS*LLFS, PRS*FamnHS-High risk, type II diabetes, hypertension, high density lipoprotein cholesterol, low density lipoprotein cholesterol, waist circumference, current cigarette smoking, current alcohol drinking. —

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
PSS001168 Cases were individulas with prevalent CHD was obtained by self-report of a coronary bypass, myocardial infarction, or any of the following: coronary angioplasty, balloon angioplasty, atherectomy, stent, percutaneous transluminal coronary angioplasty, or percutaneous coronary intervention. CHD information was similarly obtained in LLFS and FamHS; however, CHD was only validated by hospital records in FamHS. Age-at-onset was defined as the individual's age at the first report of CHD. —
[
  • 950 cases
  • , 6,453 controls
]
,
46.25 % Male samples
 Mean = 60.6 years European — FamHS, LLFS —