Polygenic Score (PGS) ID: PGS000200

Predicted Trait
Reported Trait Coronary heart disease
Mapped Trait(s) coronary artery disease (EFO_0001645)
Released in PGS Catalog: June 3, 2020
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Terms and Licenses
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 GRS28
Development Method
Name Genome-wide significant variants
Parameters NR
Variants
Original Genome Build NR
Number of Variants 28
Effect Weight Type log(OR)
PGS Source
PGS Catalog Publication (PGP) ID PGP000082
Citation (link to publication) Tikkanen E et al. Arterioscler Thromb Vasc Biol (2013)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 88.3%
South Asian: 11.7%
126,029 individuals (100%)
PGS Evaluation
European: 55.6%
African: 22.2%
Hispanic or Latin American: 22.2%
9 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST000340
Europe PMC: 19198609
 6,042 individuals European NR
GWAS Catalog: GCST000998
Europe PMC: 21378990
 86,995 individuals European 12 cohorts
  • ADVANCE
  • ,AtheroRemo
  • ,CADomics
  • ,CHARGE
  • ,GerMIFS
  • ,LURIC
  • ,MIGen
  • ,MedSTAR
  • ,OHGS
  • ,PennCATH
  • ,WTCCC
  • ,deCODE_CAD
GWAS Catalog: GCST000338
Europe PMC: 19198612
 2,520 individuals European NR
GWAS Catalog: GCST000999
Europe PMC: 21378988
 14,790 individuals South Asian
(India, Pakistan)		 NR
GWAS Catalog: GCST000999
Europe PMC: 21378988
 15,682 individuals European NR

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
PPM000583 PSS000330|
European Ancestry|
24,124 individuals
 PGP000082 |
Tikkanen E et al. Arterioscler Thromb Vasc Biol (2013)
 Reported Trait: Incident cardiovascular disease HR: 1.18 [1.12, 1.24] — — sex, total cholesterol, high-density lipoprotein–cholesterol, body mass index, systolic blood pressure, antihypertensive treatment, smoking, type 2 diabetes mellitus Age as timescale Cox regression
PPM000585 PSS000328|
European Ancestry|
24,124 individuals
 PGP000082 |
Tikkanen E et al. Arterioscler Thromb Vasc Biol (2013)
 Reported Trait: Incident acute coronary syndrome HR: 1.27 [1.18, 1.37] — — sex, total cholesterol, high-density lipoprotein–cholesterol, body mass index, systolic blood pressure, antihypertensive treatment, smoking, type 2 diabetes mellitus Age as timescale Cox regression
PPM000617 PSS000332|
African Ancestry|
7,070 individuals
 PGP000083 |
Dikilitas O et al. Am J Hum Genet (2020)
|Ext.		 Reported Trait: Incident coronary heart disease HR: 1.11 [0.99, 1.25] C-index: 0.706 — sex, eMERGE site, diabetes, hypertension, hyperlipidemia, statin use, first 5 ancestry-specific principal components Age-as-time-scale Cox regression
PPM000613 PSS000334|
European Ancestry|
39,758 individuals
 PGP000083 |
Dikilitas O et al. Am J Hum Genet (2020)
|Ext.		 Reported Trait: Incident coronary heart disease HR: 1.17 [1.12, 1.22] C-index: 0.735 — sex, eMERGE site, diabetes, hypertension, hyperlipidemia, statin use, first 5 ancestry-specific principal components Age-as-time-scale Cox regression
PPM000621 PSS000336|
Hispanic or Latin American Ancestry|
2,194 individuals
 PGP000083 |
Dikilitas O et al. Am J Hum Genet (2020)
|Ext.		 Reported Trait: Incident coronary heart disease HR: 1.13 [0.93, 1.37] C-index: 0.709 — sex, eMERGE site, diabetes, hypertension, hyperlipidemia, statin use, first 5 ancestry-specific principal components Age-as-time-scale Cox regression
PPM000584 PSS000329|
European Ancestry|
24,124 individuals
 PGP000082 |
Tikkanen E et al. Arterioscler Thromb Vasc Biol (2013)
 Reported Trait: Incident coronary heart disease HR: 1.27 [1.2, 1.35] — — sex, total cholesterol, high-density lipoprotein–cholesterol, body mass index, systolic blood pressure, antihypertensive treatment, smoking, type 2 diabetes mellitus Age as timescale Cox regression
PPM000607 PSS000334|
European Ancestry|
39,758 individuals
 PGP000083 |
Dikilitas O et al. Am J Hum Genet (2020)
|Ext.		 Reported Trait: Incident coronary heart disease HR: 1.18 [1.13, 1.23] C-index: 0.697 — sex, eMERGE site, first five ancestry-specific principal components —
PPM000608 PSS000332|
African Ancestry|
7,070 individuals
 PGP000083 |
Dikilitas O et al. Am J Hum Genet (2020)
|Ext.		 Reported Trait: Incident coronary heart disease HR: 1.11 [0.99, 1.24] C-index: 0.652 — sex, eMERGE site, first five ancestry-specific principal components —
PPM000612 PSS000335|
Hispanic or Latin American Ancestry|
2,493 individuals
 PGP000083 |
Dikilitas O et al. Am J Hum Genet (2020)
|Ext.		 Reported Trait: Coronary heart disease (incident and prevalent) OR: 1.27 [1.12, 1.42] AUROC: 0.771 — age at first EHR record, duration of EHR, sex, eMERGE site, first five ancestry-specific principal components —
PPM000611 PSS000331|
African Ancestry|
7,597 individuals
 PGP000083 |
Dikilitas O et al. Am J Hum Genet (2020)
|Ext.		 Reported Trait: Coronary heart disease (incident and prevalent) OR: 1.07 [0.99, 1.16] AUROC: 0.763 — age at first EHR record, duration of EHR, sex, eMERGE site, first five ancestry-specific principal components —
PPM000610 PSS000333|
European Ancestry|
45,645 individuals
 PGP000083 |
Dikilitas O et al. Am J Hum Genet (2020)
|Ext.		 Reported Trait: Coronary heart disease (incident and prevalent) OR: 1.24 [1.21, 1.28] AUROC: 0.748 — age at first EHR record, duration of EHR, sex, eMERGE site, first five ancestry-specific principal components —
PPM000609 PSS000336|
Hispanic or Latin American Ancestry|
2,194 individuals
 PGP000083 |
Dikilitas O et al. Am J Hum Genet (2020)
|Ext.		 Reported Trait: Incident coronary heart disease HR: 1.14 [0.94, 1.37] C-index: 0.655 — sex, eMERGE site, first five ancestry-specific principal components —
PPM000588 PSS000328|
European Ancestry|
24,124 individuals
 PGP000082 |
Tikkanen E et al. Arterioscler Thromb Vasc Biol (2013)
 Reported Trait: Incident acute coronary syndrome — C-index: 0.859 ΔC-index (over covariate only model): 0.004 [0.003, 0.005] sex, total cholesterol, high-density lipoprotein-cholesterol, body mass index, systolic blood pressure, antihypertensive treatment, smoking, type 2 diabetes mellitus, family history Age as timescale Cox regression
PPM000587 PSS000329|
European Ancestry|
24,124 individuals
 PGP000082 |
Tikkanen E et al. Arterioscler Thromb Vasc Biol (2013)
 Reported Trait: Incident coronary heart disease — C-index: 0.856 ΔC-index (over covariate only model): 0.005 [0.004, 0.006] sex, total cholesterol, high-density lipoprotein-cholesterol, body mass index, systolic blood pressure, antihypertensive treatment, smoking, type 2 diabetes mellitus, family history Age as timescale Cox regression
PPM000586 PSS000330|
European Ancestry|
24,124 individuals
 PGP000082 |
Tikkanen E et al. Arterioscler Thromb Vasc Biol (2013)
 Reported Trait: Incident cardiovascular disease — C-index: 0.84 ΔC-index (over covariate only model): 0.003 [0.002, 0.004] sex, total cholesterol, high-density lipoprotein-cholesterol, body mass index, systolic blood pressure, antihypertensive treatment, smoking, type 2 diabetes mellitus, family history Age as timescale Cox regression

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
PSS000328 ACS was defined as MI, unstable angina or death due to CHD. Mean = 19.0 years
[
  • 235 cases
  • , 4,869 controls
]
,
44.8 % Male samples
 Mean = 43.9 years
Sd = 11.3 years		 European
(Finnish)		 — FINRISK FINRISK 1992
PSS000328 ACS was defined as MI, unstable angina or death due to CHD. Mean = 14.0 years
[
  • 229 cases
  • , 6,338 controls
]
,
45.8 % Male samples
 Mean = 46.8 years
Sd = 12.9 years		 European
(Finnish)		 — FINRISK97 FINRISK 1997
PSS000328 ACS was defined as MI, unstable angina or death due to CHD. Mean = 9.0 years
[
  • 148 cases
  • , 7,182 controls
]
,
45.0 % Male samples
 Mean = 47.5 years
Sd = 13.0 years		 European
(Finnish)		 — FINRISK FINRISK 2002
PSS000328 ACS was defined as MI, unstable angina or death due to CHD. Mean = 8.0 years
[
  • 119 cases
  • , 5,004 controls
]
,
46.3 % Male samples
 Mean = 50.0 years
Sd = 11.7 years		 European
(Finnish)		 — Health2000 —
PSS000329 CHD was defined as myocardial infarction, unstable angina pectoris, coronary revascularization (coronary artery bypass graft or percutaneous transluminal coronary angioplasty), or death due to CHD. Mean = 19.0 years
[
  • 343 cases
  • , 4,761 controls
]
,
44.8 % Male samples
 Mean = 43.9 years
Sd = 11.3 years		 European
(Finnish)		 — FINRISK FINRISK 1992
PSS000329 CHD was defined as myocardial infarction, unstable angina pectoris, coronary revascularization (coronary artery bypass graft or percutaneous transluminal coronary angioplasty), or death due to CHD. Mean = 14.0 years
[
  • 344 cases
  • , 6,223 controls
]
,
45.8 % Male samples
 Mean = 46.8 years
Sd = 12.9 years		 European
(Finnish)		 — FINRISK97 FINRISK 1997
PSS000329 CHD was defined as myocardial infarction, unstable angina pectoris, coronary revascularization (coronary artery bypass graft or percutaneous transluminal coronary angioplasty), or death due to CHD. Mean = 9.0 years
[
  • 209 cases
  • , 7,121 controls
]
,
45.0 % Male samples
 Mean = 47.5 years
Sd = 13.0 years		 European
(Finnish)		 — FINRISK FINRISK 2002
PSS000329 CHD was defined as myocardial infarction, unstable angina pectoris, coronary revascularization (coronary artery bypass graft or percutaneous transluminal coronary angioplasty), or death due to CHD. Mean = 8.0 years
[
  • 197 cases
  • , 4,926 controls
]
,
46.3 % Male samples
 Mean = 50.0 years
Sd = 11.7 years		 European
(Finnish)		 — Health2000 —
PSS000330 CHD was defined as myocardial infarction, unstable angina pectoris, coronary revascularization (coronary artery bypass graft or percutaneous transluminal coronary angioplasty), or death due to CHD. CVD included CHD and ischemic stroke events. Mean = 19.0 years
[
  • 501 cases
  • , 4,603 controls
]
,
44.8 % Male samples
 Mean = 43.9 years
Sd = 11.3 years		 European
(Finnish)		 — FINRISK FINRISK 1992
PSS000330 CHD was defined as myocardial infarction, unstable angina pectoris, coronary revascularization (coronary artery bypass graft or percutaneous transluminal coronary angioplasty), or death due to CHD. CVD included CHD and ischemic stroke events. Mean = 14.0 years
[
  • 499 cases
  • , 6,068 controls
]
,
45.8 % Male samples
 Mean = 46.8 years
Sd = 12.9 years		 European
(Finnish)		 — FINRISK97 FINRISK 1997
PSS000330 CHD was defined as myocardial infarction, unstable angina pectoris, coronary revascularization (coronary artery bypass graft or percutaneous transluminal coronary angioplasty), or death due to CHD. CVD included CHD and ischemic stroke events. Mean = 9.0 years
[
  • 291 cases
  • , 7,039 controls
]
,
45.0 % Male samples
 Mean = 47.5 years
Sd = 13.0 years		 European
(Finnish)		 — FINRISK FINRISK 2002
PSS000330 CHD was defined as myocardial infarction, unstable angina pectoris, coronary revascularization (coronary artery bypass graft or percutaneous transluminal coronary angioplasty), or death due to CHD. CVD included CHD and ischemic stroke events. Mean = 8.0 years
[
  • 261 cases
  • , 4,862 controls
]
,
46.3 % Male samples
 Mean = 50.0 years
Sd = 11.7 years		 European
(Finnish)		 — Health2000 —
PSS000331 CHD was defined as occurrence of either myocardial infarction (MI) or coronary revascularization events (such as percutaneous coronary intervention or coronary artery bypass grafting) using ICD codes. Individuals with MI were defined as those whose EHR included at least two related diagnostic codes on separate occasions within a 5-day window, and individuals with coronary revascularization were defined as those who had at least one relevant procedural code in the EHR. ICD codelists and phenotyping algorithm in PMID:27678441 and PMID:25717410 Median = 9.2 years
IQR = [5.5, 13.0] years
[
  • 838 cases
  • , 6,759 controls
]
,
31.0 % Male samples
 Mean = 43.6 years
Sd = 12.5 years		 African American or Afro-Caribbean — 7 cohorts
  • BioMe
  • ,BioVU
  • ,Columbia
  • ,KP
  • ,Nugene
  • ,PHB
  • ,eMERGE
 right censored at age 75 years or at the age of last observation (whichever was first)
PSS000332 CHD was defined as occurrence of either myocardial infarction (MI) or coronary revascularization events (such as percutaneous coronary intervention or coronary artery bypass grafting) using ICD codes. Individuals with MI were defined as those whose EHR included at least two related diagnostic codes on separate occasions within a 5-day window, and individuals with coronary revascularization were defined as those who had at least one relevant procedural code in the EHR. We identified the first CHD event and classified it as ‘‘incident’’ if the event occurred at least 6 months after the participant’s first record in the EHR and if there were no previous ICD-9-CM or ICD-10-CM codes associated with CHD. ICD codelists and phenotyping algorithm in PMID:27678441 and PMID:25717410 Median = 9.2 years
IQR = [5.5, 13.0] years
[
  • 311 cases
  • , 6,759 controls
]
,
31.0 % Male samples
 Mean = 43.6 years
Sd = 12.5 years		 African American or Afro-Caribbean — 7 cohorts
  • BioMe
  • ,BioVU
  • ,Columbia
  • ,KP
  • ,Nugene
  • ,PHB
  • ,eMERGE
 right censored at age 75 years or at the age of last observation (whichever was first)
PSS000333 CHD was defined as occurrence of either myocardial infarction (MI) or coronary revascularization events (such as percutaneous coronary intervention or coronary artery bypass grafting) using ICD codes. Individuals with MI were defined as those whose EHR included at least two related diagnostic codes on separate occasions within a 5-day window, and individuals with coronary revascularization were defined as those who had at least one relevant procedural code in the EHR. ICD codelists and phenotyping algorithm in PMID:27678441 and PMID:25717410 Median = 11.7 years
IQR = [6.0, 18.5] years
[
  • 8,108 cases
  • , 37,537 controls
]
,
44.6 % Male samples
 Mean = 49.0 years
Sd = 14.1 years		 European — 11 cohorts
  • BioMe
  • ,BioVU
  • ,CCHMC
  • ,Columbia
  • ,KP
  • ,MAYO
  • ,Marshfield
  • ,MyCode
  • ,Nugene
  • ,PHB
  • ,eMERGE
 right censored at age 75 years or at the age of last observation (whichever was first)
PSS000334 CHD was defined as occurrence of either myocardial infarction (MI) or coronary revascularization events (such as percutaneous coronary intervention or coronary artery bypass grafting) using ICD codes. Individuals with MI were defined as those whose EHR included at least two related diagnostic codes on separate occasions within a 5-day window, and individuals with coronary revascularization were defined as those who had at least one relevant procedural code in the EHR. We identified the first CHD event and classified it as ‘‘incident’’ if the event occurred at least 6 months after the participant’s first record in the EHR and if there were no previous ICD-9-CM or ICD-10-CM codes associated with CHD. ICD codelists and phenotyping algorithm in PMID:27678441 and PMID:25717410 Median = 11.7 years
IQR = [6.0, 18.5] years
[
  • 2,221 cases
  • , 37,537 controls
]
,
44.6 % Male samples
 Mean = 49.0 years
Sd = 14.1 years		 European — 11 cohorts
  • BioMe
  • ,BioVU
  • ,CCHMC
  • ,Columbia
  • ,KP
  • ,MAYO
  • ,Marshfield
  • ,MyCode
  • ,Nugene
  • ,PHB
  • ,eMERGE
 right censored at age 75 years or at the age of last observation (whichever was first)
PSS000335 CHD was defined as occurrence of either myocardial infarction (MI) or coronary revascularization events (such as percutaneous coronary intervention or coronary artery bypass grafting) using ICD codes. Individuals with MI were defined as those whose EHR included at least two related diagnostic codes on separate occasions within a 5-day window, and individuals with coronary revascularization were defined as those who had at least one relevant procedural code in the EHR. ICD codelists and phenotyping algorithm in PMID:27678441 and PMID:25717410 Median = 10.4 years
IQR = [5.7, 14.7] years
[
  • 419 cases
  • , 2,074 controls
]
,
36.2 % Male samples
 Mean = 41.1 years
Sd = 13.2 years		 Hispanic or Latin American — 8 cohorts
  • BioMe
  • ,BioVU
  • ,Columbia
  • ,KP
  • ,MAYO
  • ,Nugene
  • ,PHB
  • ,eMERGE
 right censored at age 75 years or at the age of last observation (whichever was first)
PSS000336 CHD was defined as occurrence of either myocardial infarction (MI) or coronary revascularization events (such as percutaneous coronary intervention or coronary artery bypass grafting) using ICD codes. Individuals with MI were defined as those whose EHR included at least two related diagnostic codes on separate occasions within a 5-day window, and individuals with coronary revascularization were defined as those who had at least one relevant procedural code in the EHR. We identified the first CHD event and classified it as ‘‘incident’’ if the event occurred at least 6 months after the participant’s first record in the EHR and if there were no previous ICD-9-CM or ICD-10-CM codes associated with CHD. ICD codelists and phenotyping algorithm in PMID:27678441 and PMID:25717410 Median = 10.4 years
IQR = [5.7, 14.7] years
[
  • 120 cases
  • , 2,074 controls
]
,
36.2 % Male samples
 Mean = 41.1 years
Sd = 13.2 years		 Hispanic or Latin American — 8 cohorts
  • BioMe
  • ,BioVU
  • ,Columbia
  • ,KP
  • ,MAYO
  • ,Nugene
  • ,PHB
  • ,eMERGE
 right censored at age 75 years or at the age of last observation (whichever was first)