2023
DOI: 10.1093/jrsssa/qnac015
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Bayesian multistate modelling of incomplete chronic disease burden data

Abstract: The ‘multistate lifetable’ is a widely used model for the long-term health impacts of public health interventions. It requires estimates of the incidence, case fatality, and sometimes also remission rates, for multiple diseases by age and gender. The case fatality is the rate of death from a disease for people with a disease, and is commonly not observed directly. Instead, we often observe the mortality in the general population. Similarly, we might know the disease prevalence, but not the incidence. This pape… Show more

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Cited by 6 publications
(6 citation statements)
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“…For PRIMEtime analyses, we derived baseline incidence, prevalence and case fatality rates for each of the modelled diseases in the UK using incidence, prevalence and mortality data from the Global Burden of Disease (GBD) and the disbayes R package to derive epidemiologically consistent rates of case fatality, which are not explicitly reported in the GBD reports (see details in Text S1). 44 45 To estimate background trends in disease incidence and case fatality rates, we estimated rates for 2015 (the baseline year) and 2005 and allowed a linear annual progression between these years to continue into the forecast range for ten years at which point incidence and case fatality rates remain constant.…”
Section: Methodsmentioning
confidence: 99%
“…For PRIMEtime analyses, we derived baseline incidence, prevalence and case fatality rates for each of the modelled diseases in the UK using incidence, prevalence and mortality data from the Global Burden of Disease (GBD) and the disbayes R package to derive epidemiologically consistent rates of case fatality, which are not explicitly reported in the GBD reports (see details in Text S1). 44 45 To estimate background trends in disease incidence and case fatality rates, we estimated rates for 2015 (the baseline year) and 2005 and allowed a linear annual progression between these years to continue into the forecast range for ten years at which point incidence and case fatality rates remain constant.…”
Section: Methodsmentioning
confidence: 99%
“…The linkage of national collections data and the calculation of raw incidence, prevalence and mortality rates were conducted using SAS (SAS Institute Inc., Cary, NC, USA) and Microsoft Excel (Microsoft Corp., Redmond, WA, USA). Disease rates were processed using the disbayes package in R to generate estimates of case fatality from mortality, incidence and prevalence data [46, 47]. The multi‐state life‐table model was implemented in Python version 3.6 (http://www.python.org).…”
Section: Methodsmentioning
confidence: 99%
“…Data was extrapolated to age 100+ using a polynomial trend line ( Supplementary Table S2 ). Then, health data estimates were interpolated to 1y age/sex groups using a temporal disaggregation method to obtain smooth disaggregated counts, while maintaining the aggregated total(32).…”
Section: Methodsmentioning
confidence: 99%
“…Case fatality rates were derived from cause-specific incidence, prevalence and mortality data, together with population size using a Bayesian approach, the disbayes optimization method built on the Stan software ( disbayes package available in R)(32, 34). It was assumed that case fatality was constant for all ages below 35.…”
Section: Methodsmentioning
confidence: 99%
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