Polygenic Score (PGS) ID: PGS003727

Predicted Trait
Reported Trait Coronary artery disease
Mapped Trait(s) coronary artery disease (EFO_0001645)
Released in PGS Catalog: July 5, 2023
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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 GPS_CADEUR
Development Method
Name LDpred2
Parameters p=0.018, h^2 scale=1, Sparse LD=F.
Variants
Original Genome Build hg19
Number of Variants 1,125,113
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000466
Citation (link to publication) Patel AP et al. Nat Med (2023)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
504,636 individuals (100%)
Score Development/Training
European: 100%
116,649 individuals (100%)
PGS Evaluation
European: 33.3%
African: 16.7%
East Asian: 16.7%
Multi-ancestry (including European): 16.7%
  • European
  • Additional Asian Ancestries
  • African
  • Not Reported
South Asian: 16.7%
6 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
Europe PMC: 36474045
[
  • 86,847 cases
  • , 417,789 controls
]
 European CARDIoGRAMplusC4D
Score Development/Training
Study Identifiers Sample Numbers Sample Ancestry Cohort(s) Phenotype Definitions & Methods Age of Study Participants Participant Follow-up Time Additional Ancestry Description Additional Sample/Cohort Information
Europe PMC: 30305743
[
  • 4,412 cases
  • , 112,237 controls
]
,
47.5 % Male samples
 European
(British)		 UKB ICD 10: I21,I210,I211,I212,I213,I214,I219,I22,I220,I221,I228,I229,I23,I230,I231,I232,I233,I234,I235,I236,I238,I24,I240,I241,I248,I249,I252; ICD9: 410, 411, 412, 4119,4129,4109; OPCS: K40,K401,K402,K403,K404,K408,K409,K41,K411,K412,K413,K414,K418,K419,K42,K421,K422,K423,K424,K428,K429,K43,K431,K432,K433,K434,K438,K439,K44,K441,K442,K448,K449,K451,K452,K453,K454,K455,K456,K458,K459,K46,K461,K462,K463,K464,K465,K468,K469,K471,K491,K492,K493,K494,K498,K499,K501,K502,K504,K751,K752,K753,K754,K758,K759 Mean = 57.5 years — — First released tranche of genotypes from UKBB

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
PPM018431 PSS010960|
European Ancestry|
308,264 individuals
 PGP000466 |
Patel AP et al. Nat Med (2023)
 Reported Trait: Coronary artery disease HR: 1.67 [1.64, 1.7] — — age, sex and the first ten principal components of genetic ancestry —
PPM018432 PSS010961|
African Ancestry|
7,281 individuals
 PGP000466 |
Patel AP et al. Nat Med (2023)
 Reported Trait: Coronary artery disease HR: 1.15 [0.99, 1.34] — — age, sex and the first ten principal components of genetic ancestry —
PPM018433 PSS010962|
East Asian Ancestry|
1,464 individuals
 PGP000466 |
Patel AP et al. Nat Med (2023)
 Reported Trait: Coronary artery disease HR: 1.54 [1.03, 2.32] — — age, sex and the first ten principal components of genetic ancestry —
PPM018434 PSS010963|
South Asian Ancestry|
8,982 individuals
 PGP000466 |
Patel AP et al. Nat Med (2023)
 Reported Trait: Coronary artery disease HR: 1.57 [1.44, 1.7] — — age, sex and the first ten principal components of genetic ancestry —
PPM022291 PSS011903|
Multi-ancestry (including European)|
429 individuals
 PGP000695 |
Reeskamp LF et al. JACC Adv (2023)
|Ext.		 Reported Trait: Incident coronary artery disease among heterozygous familial hypercholesterolemia variant carriers HR: 1.31 [0.97, 1.77] — — Age, sex, 5 PCs —
PPM022290 PSS011902|
European Ancestry|
1,315 individuals
 PGP000695 |
Reeskamp LF et al. JACC Adv (2023)
|Ext.		 Reported Trait: Incident coronary artery disease among heterozygous familial hypercholesterolemia variant carriers HR: 1.35 [1.07, 1.7] — — Age, sex, 5 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
PSS011902 — — 1,315 individuals,
47.1 % Male samples
 Mean = 42.1 years
Sd = 14.6 years		 European
(Dutch)		 — Dutch HeFH —
PSS011903 — — 383 individuals — European — UKB Independent to UKB cohort used to train the PGS
PSS011903 — — 27 individuals — Asian unspecified — UKB Independent to UKB cohort used to train the PGS
PSS011903 — — 9 individuals — African American or Afro-Caribbean — UKB Independent to UKB cohort used to train the PGS
PSS011903 — — 10 individuals — Not reported — UKB Independent to UKB cohort used to train the PGS
PSS010960 ICD 10: I21,I210,I211,I212,I213,I214,I219,I22,I220,I221,I228,I229,I23,I230,I231,I232,I233,I234,I235,I236,I238,I24,I240,I241,I248,I249,I252; ICD9: 410, 411, 412, 4119,4129,4109; OPCS: K40,K401,K402,K403,K404,K408,K409,K41,K411,K412,K413,K414,K418,K419,K42,K421,K422,K423,K424,K428,K429,K43,K431,K432,K433,K434,K438,K439,K44,K441,K442,K448,K449,K451,K452,K453,K454,K455,K456,K458,K459,K46,K461,K462,K463,K464,K465,K468,K469,K471,K491,K492,K493,K494,K498,K499,K501,K502,K504,K751,K752,K753,K754,K758,K759 Mean = 12.0 years
Range = [11.2, 12.7] years
[
  • 10,492 cases
  • , 297,772 controls
]
,
45.6 % Male samples
 Mean = 57.3 years European — UKB Excluding first released tranche of genotypes from UKBB
PSS010961 ICD 10: I21,I210,I211,I212,I213,I214,I219,I22,I220,I221,I228,I229,I23,I230,I231,I232,I233,I234,I235,I236,I238,I24,I240,I241,I248,I249,I252; ICD9: 410, 411, 412, 4119,4129,4109; OPCS: K40,K401,K402,K403,K404,K408,K409,K41,K411,K412,K413,K414,K418,K419,K42,K421,K422,K423,K424,K428,K429,K43,K431,K432,K433,K434,K438,K439,K44,K441,K442,K448,K449,K451,K452,K453,K454,K455,K456,K458,K459,K46,K461,K462,K463,K464,K465,K468,K469,K471,K491,K492,K493,K494,K498,K499,K501,K502,K504,K751,K752,K753,K754,K758,K759 Mean = 12.0 years
Range = [11.2, 12.7] years
[
  • 124 cases
  • , 7,157 controls
]
,
43.5 % Male samples
 Mean = 52.4 years African unspecified — UKB —
PSS010962 ICD 10: I21,I210,I211,I212,I213,I214,I219,I22,I220,I221,I228,I229,I23,I230,I231,I232,I233,I234,I235,I236,I238,I24,I240,I241,I248,I249,I252; ICD9: 410, 411, 412, 4119,4129,4109; OPCS: K40,K401,K402,K403,K404,K408,K409,K41,K411,K412,K413,K414,K418,K419,K42,K421,K422,K423,K424,K428,K429,K43,K431,K432,K433,K434,K438,K439,K44,K441,K442,K448,K449,K451,K452,K453,K454,K455,K456,K458,K459,K46,K461,K462,K463,K464,K465,K468,K469,K471,K491,K492,K493,K494,K498,K499,K501,K502,K504,K751,K752,K753,K754,K758,K759 Mean = 12.0 years
Range = [11.2, 12.7] years
[
  • 22 cases
  • , 1,442 controls
]
,
37.2 % Male samples
 Mean = 53.0 years East Asian — UKB —
PSS010963 ICD 10: I21,I210,I211,I212,I213,I214,I219,I22,I220,I221,I228,I229,I23,I230,I231,I232,I233,I234,I235,I236,I238,I24,I240,I241,I248,I249,I252; ICD9: 410, 411, 412, 4119,4129,4109; OPCS: K40,K401,K402,K403,K404,K408,K409,K41,K411,K412,K413,K414,K418,K419,K42,K421,K422,K423,K424,K428,K429,K43,K431,K432,K433,K434,K438,K439,K44,K441,K442,K448,K449,K451,K452,K453,K454,K455,K456,K458,K459,K46,K461,K462,K463,K464,K465,K468,K469,K471,K491,K492,K493,K494,K498,K499,K501,K502,K504,K751,K752,K753,K754,K758,K759 Mean = 12.0 years
Range = [11.2, 12.7] years
[
  • 542 cases
  • , 8,440 controls
]
,
54.1 % Male samples
 Mean = 53.8 years South Asian — UKB —