Predicted Trait | |
Reported Trait | Coronary Artery Disease |
Mapped Trait(s) | coronary artery disease (EFO_0001645) |
Score Construction | |
PGS Name | CAD_EJ2020 |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 40,079 |
Development Method | |
Name | Lassosum |
Parameters | INFO score>0.999; N=1,037,385 variants; s=0.5; lambda=0.00428 |
PGS Source | |
PGS Catalog Publication (PGP) ID | PGP000054 |
Citation (link to publication) | Elliott J et al. JAMA (2020) |
Study Identifiers | Sample Numbers | Sample Ancestry |
---|---|---|
GWAS Catalog: GCST003116 EuropePMC: 26343387 |
11,323 individuals | East Asian |
GWAS Catalog: GCST003116 EuropePMC: 26343387 |
25,557 individuals | South Asian |
GWAS Catalog: GCST003116 EuropePMC: 26343387 |
2,268 individuals | Greater Middle Eastern (Middle Eastern, North African or Persian) |
GWAS Catalog: GCST003116 EuropePMC: 26343387 |
4,095 individuals | Hispanic or Latin American |
GWAS Catalog: GCST003116 EuropePMC: 26343387 |
141,217 individuals | European |
GWAS Catalog: GCST003116 EuropePMC: 26343387 |
3,139 individuals | African American or Afro-Caribbean |
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 |
---|---|---|---|---|---|---|---|
Coronary artery disease was defined as myocardial infarction and its related sequelae (coronary angioplasty, and coronary artery bypass grafts). ICD-10 codes: I21, I22, I23, I24.1, I25.2 ICD-9 codes: 410, 411, 412, 429.79 OPCS-4 codes: K40.1-4, K41.1-4, K45.1-5, K49.1-2, K49.8-9, K50.2, K75.1-4, K54.8-9 UKBiobank field 20002 code: 1075 UKBiobank field 20004 codes: 1070, 1095 UKBiobank field 6150 code: 1 See eTable 1 for risk factor codings | — | [ ,
68.24 % Male samples |
Mean = 60.0 years | European, East Asian, South Asian, Asian unspecified, NR | 95% European, 0.2% Chinese, 1,4% Indian,0.4%Other Asian, 0.5% Pakistani, 1.1 % Other ancestries | UKB | Tuning (Case-Control) Set |
PGS Performance Metric ID (PPM ID) |
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 |
---|---|---|---|---|---|---|---|---|
PPM000836 | PSS000401 | PGP000054 Elliott J et al. JAMA (2020) |
Reported Trait: Incident coronary artery disease | — | C-index: 0.74 [0.73, 0.75] | — | QRISK3 | — |
PPM000837 | PSS000389 | PGP000054 Elliott J et al. JAMA (2020) |
Reported Trait: Incident coronary artery disease (over age 55) | — | C-index: 0.75 [0.74, 0.76] | — | QRISK3 | — |
PPM000838 | PSS000385 | PGP000054 Elliott J et al. JAMA (2020) |
Reported Trait: Incident coronary artery disease (under age 55) | — | C-index: 0.83 [0.81, 0.84] | — | QRISK3 | — |
PPM000839 | PSS000393 | PGP000054 Elliott J et al. JAMA (2020) |
Reported Trait: Incident coronary artery disease (in males) | — | C-index: 0.73 [0.72, 0.74] | — | QRISK3 | — |
PPM000840 | PSS000397 | PGP000054 Elliott J et al. JAMA (2020) |
Reported Trait: Incident coronary artery disease (in females) | — | C-index: 0.78 [0.76, 0.79] | — | QRISK3 | — |
PPM000807 | PSS000399 | PGP000054 Elliott J et al. JAMA (2020) |
Reported Trait: Incident coronary artery disease | — | C-index: 0.76 [0.75, 0.76] | — | age,sex | — |
PPM000808 | PSS000399 | PGP000054 Elliott J et al. JAMA (2020) |
Reported Trait: Incident coronary artery disease | — | C-index: 0.78 [0.77, 0.79] | — | pooled cohort equations | — |
PPM000810 | PSS000387 | PGP000054 Elliott J et al. JAMA (2020) |
Reported Trait: Incident coronary artery disease (over age 55) | — | C-index: 0.71 [0.7, 0.72] | — | age,sex | — |
PPM000811 | PSS000387 | PGP000054 Elliott J et al. JAMA (2020) |
Reported Trait: Incident coronary artery disease (over age 55) | — | C-index: 0.74 [0.73, 0.74] | — | pooled cohort equations | — |
PPM000813 | PSS000383 | PGP000054 Elliott J et al. JAMA (2020) |
Reported Trait: Incident coronary artery disease (under age 55) | — | C-index: 0.76 [0.75, 0.78] | — | age,sex | — |
PPM000814 | PSS000383 | PGP000054 Elliott J et al. JAMA (2020) |
Reported Trait: Incident coronary artery disease (under age 55) | — | C-index: 0.8 [0.79, 0.82] | — | pooled cohort equations | — |
PPM000816 | PSS000391 | PGP000054 Elliott J et al. JAMA (2020) |
Reported Trait: Incident coronary artery disease (in males) | — | C-index: 0.68 [0.67, 0.69] | — | age,sex | — |
PPM000817 | PSS000391 | PGP000054 Elliott J et al. JAMA (2020) |
Reported Trait: Incident coronary artery disease (in males) | — | C-index: 0.71 [0.7, 0.72] | — | pooled cohort equations | — |
PPM000819 | PSS000395 | PGP000054 Elliott J et al. JAMA (2020) |
Reported Trait: Incident coronary artery disease (in females) | — | C-index: 0.71 [0.7, 0.73] | — | age,sex | — |
PPM000820 | PSS000395 | PGP000054 Elliott J et al. JAMA (2020) |
Reported Trait: Incident coronary artery disease (in females) | — | C-index: 0.76 [0.74, 0.77] | — | pooled cohort equations | — |
PPM000806 | PSS000399 | PGP000054 Elliott J et al. JAMA (2020) |
Reported Trait: Incident coronary artery disease | HR: 1.32 [1.3, 1.34] | C-index: 0.61 [0.6, 0.62] | — | — | — |
PPM000809 | PSS000387 | PGP000054 Elliott J et al. JAMA (2020) |
Reported Trait: Incident coronary artery disease (over age 55) | — | C-index: 0.6 [0.59, 0.61] | — | — | — |
PPM000812 | PSS000383 | PGP000054 Elliott J et al. JAMA (2020) |
Reported Trait: Incident coronary artery disease (under age 55) | — | C-index: 0.64 [0.63, 0.66] | — | — | — |
PPM000815 | PSS000391 | PGP000054 Elliott J et al. JAMA (2020) |
Reported Trait: Incident coronary artery disease (in males) | — | C-index: 0.61 [0.6, 0.62] | — | — | — |
PPM000818 | PSS000395 | PGP000054 Elliott J et al. JAMA (2020) |
Reported Trait: Incident coronary artery disease (in females) | — | C-index: 0.61 [0.6, 0.63] | — | — | — |
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 |
---|---|---|---|---|---|---|---|---|
PSS000383 | Coronary artery disease was defined as myocardial infarction and its related sequelae (coronary angioplasty, and coronary artery bypass grafts). ICD-10 codes: I21, I22, I23, I24.1, I25.2 ICD-9 codes: 410, 411, 412, 429.79 OPCS-4 codes: K40.1-4, K41.1-4, K45.1-5, K49.1-2, K49.8-9, K50.2, K75.1-4, K54.8-9 UKBiobank field 20002 code: 1075 UKBiobank field 20004 codes: 1070, 1095 UKBiobank field 6150 code: 1 See eTable 1 for risk factor codings | Mean = 8.01 years Sd = 1.04 years |
[
|
Range = [40.0, 55.0] years | European, African unspecified, NR | 98.3% White European, 1.7% Black/Other | UKB | PCE Prospective Cohort (lipid-lowering treatment performed) |
PSS000385 | Coronary artery disease was defined as myocardial infarction and its related sequelae (coronary angioplasty, and coronary artery bypass grafts). ICD-10 codes: I21, I22, I23, I24.1, I25.2 ICD-9 codes: 410, 411, 412, 429.79 OPCS-4 codes: K40.1-4, K41.1-4, K45.1-5, K49.1-2, K49.8-9, K50.2, K75.1-4, K54.8-9 UKBiobank field 20002 code: 1075 UKBiobank field 20004 codes: 1070, 1095 UKBiobank field 6150 code: 1 See eTable 1 for risk factor codings | Mean = 8.01 years Sd = 1.04 years |
[
|
Range = [40.0, 55.0] years | European, South Asian, African American or Afro-Caribbean, African unspecified, East Asian, Asian unspecified | 2,332 Africans, 145 Bangladeshi, 3,165 Carribeans, 1,136 Chinese, 3,790 Indians, 1,258 Other Asians, 1,182 Pakistani, 332,326 White Europeans and Unkown ancestry | UKB | QRISK3 Prospective Cohort/Testing Set (lipid-lowering treatment performed) |
PSS000387 | Coronary artery disease was defined as myocardial infarction and its related sequelae (coronary angioplasty, and coronary artery bypass grafts). ICD-10 codes: I21, I22, I23, I24.1, I25.2 ICD-9 codes: 410, 411, 412, 429.79 OPCS-4 codes: K40.1-4, K41.1-4, K45.1-5, K49.1-2, K49.8-9, K50.2, K75.1-4, K54.8-9 UKBiobank field 20002 code: 1075 UKBiobank field 20004 codes: 1070, 1095 UKBiobank field 6150 code: 1 See eTable 1 for risk factor codings | Mean = 8.01 years Sd = 1.04 years |
[
|
Range = [55.0, 69.0] years | European, African unspecified, NR | 98.3% White European, 1.7% Black/Other | UKB | PCE Prospective Cohort (lipid-lowering treatment performed) |
PSS000389 | Coronary artery disease was defined as myocardial infarction and its related sequelae (coronary angioplasty, and coronary artery bypass grafts). ICD-10 codes: I21, I22, I23, I24.1, I25.2 ICD-9 codes: 410, 411, 412, 429.79 OPCS-4 codes: K40.1-4, K41.1-4, K45.1-5, K49.1-2, K49.8-9, K50.2, K75.1-4, K54.8-9 UKBiobank field 20002 code: 1075 UKBiobank field 20004 codes: 1070, 1095 UKBiobank field 6150 code: 1 See eTable 1 for risk factor codings | Mean = 8.01 years Sd = 1.04 years |
[
|
Range = [55.0, 69.0] years | European, South Asian, African American or Afro-Caribbean, African unspecified, East Asian, Asian unspecified | 2,332 Africans, 145 Bangladeshi, 3,165 Carribeans, 1,136 Chinese, 3,790 Indians, 1,258 Other Asians, 1,182 Pakistani, 332,326 White Europeans and Unkown ancestry | UKB | QRISK3 Prospective Cohort/Testing Set (lipid-lowering treatment performed) |
PSS000391 | Coronary artery disease was defined as myocardial infarction and its related sequelae (coronary angioplasty, and coronary artery bypass grafts). ICD-10 codes: I21, I22, I23, I24.1, I25.2 ICD-9 codes: 410, 411, 412, 429.79 OPCS-4 codes: K40.1-4, K41.1-4, K45.1-5, K49.1-2, K49.8-9, K50.2, K75.1-4, K54.8-9 UKBiobank field 20002 code: 1075 UKBiobank field 20004 codes: 1070, 1095 UKBiobank field 6150 code: 1 See eTable 1 for risk factor codings | Mean = 8.01 years Sd = 1.04 years |
[ ,
100.0 % Male samples |
Mean = 55.79 years Sd = 8.35 years |
European, African unspecified, NR | 98.3% White European, 1.7% Black/Other | UKB | PCE Prospective Cohort (lipid-lowering treatment performed) |
PSS000393 | Coronary artery disease was defined as myocardial infarction and its related sequelae (coronary angioplasty, and coronary artery bypass grafts). ICD-10 codes: I21, I22, I23, I24.1, I25.2 ICD-9 codes: 410, 411, 412, 429.79 OPCS-4 codes: K40.1-4, K41.1-4, K45.1-5, K49.1-2, K49.8-9, K50.2, K75.1-4, K54.8-9 UKBiobank field 20002 code: 1075 UKBiobank field 20004 codes: 1070, 1095 UKBiobank field 6150 code: 1 See eTable 1 for risk factor codings | Mean = 8.01 years Sd = 1.04 years |
[ ,
100.0 % Male samples |
Mean = 55.8 years Sd = 8.3 years |
European, South Asian, African American or Afro-Caribbean, African unspecified, East Asian, Asian unspecified | 2,332 Africans, 145 Bangladeshi, 3,165 Carribeans, 1,136 Chinese, 3,790 Indians, 1,258 Other Asians, 1,182 Pakistani, 332,326 White Europeans and Unkown ancestry | UKB | QRISK3 Prospective Cohort/Testing Set (lipid-lowering treatment performed) |
PSS000395 | Coronary artery disease was defined as myocardial infarction and its related sequelae (coronary angioplasty, and coronary artery bypass grafts). ICD-10 codes: I21, I22, I23, I24.1, I25.2 ICD-9 codes: 410, 411, 412, 429.79 OPCS-4 codes: K40.1-4, K41.1-4, K45.1-5, K49.1-2, K49.8-9, K50.2, K75.1-4, K54.8-9 UKBiobank field 20002 code: 1075 UKBiobank field 20004 codes: 1070, 1095 UKBiobank field 6150 code: 1 See eTable 1 for risk factor codings | Mean = 8.01 years Sd = 1.04 years |
[ ,
0.0 % Male samples |
Mean = 56.0 years Sd = 8.01 years |
European, African unspecified, NR | 98.3% White European, 1.7% Black/Other | UKB | PCE Prospective Cohort (lipid-lowering treatment performed) |
PSS000397 | Coronary artery disease was defined as myocardial infarction and its related sequelae (coronary angioplasty, and coronary artery bypass grafts). ICD-10 codes: I21, I22, I23, I24.1, I25.2 ICD-9 codes: 410, 411, 412, 429.79 OPCS-4 codes: K40.1-4, K41.1-4, K45.1-5, K49.1-2, K49.8-9, K50.2, K75.1-4, K54.8-9 UKBiobank field 20002 code: 1075 UKBiobank field 20004 codes: 1070, 1095 UKBiobank field 6150 code: 1 See eTable 1 for risk factor codings | Mean = 8.01 years Sd = 1.04 years |
[ ,
0.0 % Male samples |
Mean = 56.0 years Sd = 8.0 years |
European, South Asian, African American or Afro-Caribbean, African unspecified, East Asian, Asian unspecified | 2,332 Africans, 145 Bangladeshi, 3,165 Carribeans, 1,136 Chinese, 3,790 Indians, 1,258 Other Asians, 1,182 Pakistani, 332,326 White Europeans and Unkown ancestry | UKB | QRISK3 Prospective Cohort/Testing Set (lipid-lowering treatment performed) |
PSS000399 | Coronary artery disease was defined as myocardial infarction and its related sequelae (coronary angioplasty, and coronary artery bypass grafts). ICD-10 codes: I21, I22, I23, I24.1, I25.2 ICD-9 codes: 410, 411, 412, 429.79 OPCS-4 codes: K40.1-4, K41.1-4, K45.1-5, K49.1-2, K49.8-9, K50.2, K75.1-4, K54.8-9 UKBiobank field 20002 code: 1075 UKBiobank field 20004 codes: 1070, 1095 UKBiobank field 6150 code: 1 See eTable 1 for risk factor codings | Mean = 8.01 years Sd = 1.04 years |
[ ,
41.8 % Male samples |
Mean = 55.9 years Range = [40.0, 69.0] years |
European, African unspecified, NR | 98.3% White European, 1.7% Black/Other | UKB | PCE Prospective Cohort (lipid-lowering treatment performed) |
PSS000401 | Coronary artery disease was defined as myocardial infarction and its related sequelae (coronary angioplasty, and coronary artery bypass grafts). ICD-10 codes: I21, I22, I23, I24.1, I25.2 ICD-9 codes: 410, 411, 412, 429.79 OPCS-4 codes: K40.1-4, K41.1-4, K45.1-5, K49.1-2, K49.8-9, K50.2, K75.1-4, K54.8-9 UKBiobank field 20002 code: 1075 UKBiobank field 20004 codes: 1070, 1095 UKBiobank field 6150 code: 1 See eTable 1 for risk factor codings | Mean = 8.01 years Sd = 1.04 years |
[ ,
41.0 % Male samples |
Range = [40.0, 69.0] years | European, South Asian, African American or Afro-Caribbean, African unspecified, East Asian, Asian unspecified | 2,332 Africans, 145 Bangladeshi, 3,165 Carribeans, 1,136 Chinese, 3,790 Indians, 1,258 Other Asians, 1,182 Pakistani, 332,326 White Europeans and Unkown ancestry | UKB | QRISK3 Prospective Cohort/Testing Set (lipid-lowering treatment performed) |