R package “QRISK3”: an unofficial research purposed implementation of ClinRisk’s QRISK3 algorithm into R

Li, Yan; Sperrin, Matthew; Staa, Tjeerd van

doi:10.12688/f1000research.21679.2

Cited by 2 publications

(2 citation statements)

References 12 publications

(13 reference statements)

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“…The Systematic Coronary Risk Evaluation (SCORE) was assessed as previously described [ 3 ]. QRISK3 was estimated using the R package developed by Yan Li et al [ 8 ]. Because all patients belong to a Spanish population, the UK post code variable included in this risk calculator was handled as missing.…”

Section: Methodsmentioning

confidence: 99%

QRISK3 Performance in the Assessment of Cardiovascular Risk in Patients with Inflammatory Bowel Disease

Carrillo-Palau

Hernández-Camba

Ramos

et al. 2021

JCM

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Inflammatory bowel disease (IBD) has been described as an independent risk factor for the development of cardiovascular (CV) disease. Since the QRESEARCH risk estimator version 3 (QRISK3) calculator was recently proposed to assess CV in the general population, our objective was to compare the predictive ability of QRISK3 with that of a well-established European CV risk calculator, the Systematic Coronary Risk Assessment (SCORE), to identify the presence of subclinical carotid atherosclerosis in patients with IBD. In all, 186 patients with IBD and 178 controls were recruited. The presence of subclinical atherosclerosis was evaluated by carotid ultrasound to identify carotid plaque and the thickness of the carotid intima-media (cIMT). QRISK3 and SCORE were calculated. The relationship of QRISK3 and SCORE with each other and with the presence of subclinical carotid atherosclerosis (both carotid plaque and cIMT) was studied in patients and controls. SCORE (0.2 (interquartile range 0.1–0.9) vs. 0.4 (0.1–1.4), p = 0.55) and QRISK3 1.7 ((0.6–4.6) vs. 3.0 (1.0–7.8), p = 0.16) absolute values did not differ between patients and controls. QRISK3 and SCORE correlated equally with cIMT within both populations. However, SCORE correlation with cIMT was found to be significantly lower in patients with IBD when compared to controls (Spearman’s Rho 0.715 vs. 0.587, p = 0.034). Discrimination analysis of both calculators with carotid plaque was similar within both populations. Nevertheless, in patients with IBD, QRISK3 showed a trend toward a higher discrimination (QRISK3 area under the curve 0.812 (95%CI 0.748–0.875) vs. SCORE 0.790 (95%CI 0.723–0.856), p = 0.051). In conclusion, QRISK3 discrimination for subclinical atherosclerosis is optimal and equivalent to that of SCORE in IBD patients. However, our findings highlight the role of QRISK3 as an appropriate tool for the assessment of CV risk in patients with IBD.

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Section: Methodsmentioning

confidence: 99%

QRISK3 Performance in the Assessment of Cardiovascular Risk in Patients with Inflammatory Bowel Disease

Carrillo-Palau

Hernández-Camba

Ramos

et al. 2021

JCM

View full text Add to dashboard Cite

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“…We included 199,778 individuals without missing data in any of QRISK3 variables, born in England and Scotland with genotype data (Supplementary Table 3, Supplementary Table 8). We used R Package QRISK3 (version 0.3.0) [24,27] to calculate the 10-year cardiovascular disease risk score for each individual. All 22 variables used in QRISK3 algorithm were available in UK Biobank Assessment Centre.…”

Section: Source Of Cad-associated Snpsmentioning

confidence: 99%

Polygenic Risk for Coronary Artery Disease in the Scottish and English Population

Yang

Starnecker

Pang

et al. 2021

Preprint

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Background: Epidemiological studies have repeatedly observed a markedly higher risk for coronary artery disease (CAD) in Scotland as compared to England. Up to now, it is unclear whether environmental or genetic factors might explain this phenomenon. Methods: Studying UK Biobank we assessed CAD risk based on the Framingham risk score (FRS) and common genetic variants to explore the respective contribution to CAD prevalence in Scotland (n=31,963) and England (n=317,889). We calculated FRS based on sex, age, body mass index, total cholesterol, high density lipoprotein cholesterol, systolic blood pressure, antihypertensive medication, smoking status, and diabetes. We determined the allele frequency of published genome-wide significant risk CAD alleles and a weighted genetic risk score (wGRS) for quantifying genetic CAD risk.Results: Prevalence of CAD was 16% higher in Scotland as compared to England (8.98% vs. 7.68%, P<0.001). By contrast, the FRS predicted a less than 1% higher CAD risk in Scotland (12.5±10.5 vs.12.6±10.6, P=0.03). Likewise, the overall number genome-wide significant variants affecting CAD risk (157.6±7.7 and 157.5±7.7; P=0.12) and a wGRS for CAD (2.49±0.25 in both populations, P=0.14) were remarkably similar in the English and Scottish population. Interestingly, we observed substantial differences with respect to the allele frequencies of individual risk variants. Of the previously described 163 genome-wide significant variants studied here 35 had higher frequencies in Scotland whereas 37 had higher frequencies in England (P<0.001 each).Conclusions: Neither the traditional risk factors included in the FRS nor a GRS based on established common risk alleles explained the higher CAD prevalence in Scotland. However, we observed marked differences in the distribution of individual risk alleles which emphasizes that even geographically and ethnically closely related populations may display relevant differences in the genetic architecture of a common disease.

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R package “QRISK3”: an unofficial research purposed implementation of ClinRisk’s QRISK3 algorithm into R

Cited by 2 publications

References 12 publications

QRISK3 Performance in the Assessment of Cardiovascular Risk in Patients with Inflammatory Bowel Disease

QRISK3 Performance in the Assessment of Cardiovascular Risk in Patients with Inflammatory Bowel Disease

Polygenic Risk for Coronary Artery Disease in the Scottish and English Population

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