Resources Repository
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Tools/ModelsInteractive, Teaching Resource 2020Interactive Graphic: Interpreting a COVID-19 Test Result
Currently, the most common diagnostic test for COVID-19 relies on reverse transcriptase polymerase chain reaction …
Currently, the most common diagnostic test for COVID-19 relies on reverse transcriptase polymerase chain reaction (RT-PCR), and most often uses samples obtained from the respiratory tract by nasopharyngeal swab. This interactive graphic demonstrates the influence of the prior probability of COVID-19, the test sensitivity (i.e., the probability of a positive test conditional on disease presence), and the test specificity (i.e., the probability of a negative test conditional on disease absence) on the post-test probability of…
Probability/Bayes | Infectious Diseases | Test Performance | Clinical Care | Health/Medicine | Science/Technology | High School | College | Graduate | Doctoral | Professional | Graphics/Visualization | Quantitative Literacy -
ArticlePublication 2020Interpreting COVID-19 Test Results: A Bayesian Approach
This article considers the following question with respect to interpreting the results of polymerase chain reaction …
This article considers the following question with respect to interpreting the results of polymerase chain reaction (PCR) assays from nasal and pharyngeal swabs for COVID-19 to inform clinical decision making: "While a positive result in an acutely ill patient is straightforward, how should physicians interpret negative tests in patients with suspected COVID-19 infection?" Using an assumption of near-perfect specificity of PCR assays for COVID-19, the authors acknowledge the uncertainty of test sensitivity. They consider two clinical scenarios…
Probability/Bayes | Infectious Diseases | Test Performance | Health/Medicine | Science/Technology | Global -
Resource PackWeb Portal, Teaching Resource 2018Resource Pack: Cervical Cancer Models
This resource pack, curated by the Center for Health Decision Science, is a collection of …
This resource pack, curated by the Center for Health Decision Science, is a collection of models of HPV-related cervical cancer, differing in design, structure and features based on analytic objectives. In many ways, HPV and its related diseases represent a prototypical public health problem given the communicable and non-communicable nature of disease, opportunities for intervention along the entire disease spectrum (e.g., primary and secondary prevention, diagnosis, treatment), the varied ages at which interventions are targeted…
Dynamic Transmission | Infectious Diseases | Mathematical Models | State-Transition | Microsimulation | Calibration/Validation | Dynamic Simulation | Cost-Effectiveness Analysis | Chronic Disease/Risk | Health Systems | Clinical Care | Business/Industry | Economics/Finance | Health/Medicine | Science/Technology | Global -
Teaching PackPublication, Teaching Resource 2022Teaching Pack: Using Test Information I
In this teaching pack on Using Test Information I, students review the performance of a …
In this teaching pack on Using Test Information I, students review the performance of a dichotomous test and the relationship between sensitivity and specificity, calculate likelihood ratios to describe test performance, and conduct probability revision using the odds-LR form of Bayes. Materials include an instructor's note, videos, companion slides, a glossary, an annotated bibliography, and sample exercises. Learning Objectives Calculate four conditional probabilities describing the performance of a dichotomous test, and explain the…
Probability/Bayes | Child/Nutrition | Test Performance | Decision Analysis | Health/Medicine | College | Graduate | Doctoral | Professional | Critical Thinking/Analysis | Graphics/Visualization | Quantitative Literacy -
ArticleWeb Portal 2017PLoS Collection: Prevention, Diagnosis and Treatment of Sexually Transmitted Infections
Globally, the World Health Organization (WHO) estimates that more than one million new sexually transmitted …
Globally, the World Health Organization (WHO) estimates that more than one million new sexually transmitted infections (STIs) occur each day, incurring a very substantial burden of morbidity, mortality and additional infections. The pathogens responsible include bacteria, parasites and viruses, and intensive research is needed to address the substantial barriers to diagnosis and treatment of STIs, and the behavioral challenges of prevention. This PLOS collection, published in collaboration with WHO, focuses on global policy and systems…
Dynamic Transmission | Infectious Diseases | Priority Setting/Ethics | Costing Methods | Mathematical Models | Cost-Effectiveness Analysis | Health Systems | Economics/Finance | Health/Medicine | Sub-Saharan Africa | Middle East & North Africa | Latin America & Caribbean | Asia & Pacific -
ArticlePublication 2017Estimating the Fitness Cost and Benefit of Cefixime Resistance in Neisseria Gonorrhoeae
Gonorrhoea is one of the most common bacterial sexually transmitted infections in England, and more …
Gonorrhoea is one of the most common bacterial sexually transmitted infections in England, and more than half of annual infections occur in men who have sex with men (MSM). As the bacterium has developed resistance to each first-line antibiotic in turn, an improved understanding is needed of fitness benefits and costs of antibiotic resistance to inform control policy and planning. The authors developed a stochastic compartmental model representing the natural history and transmission of cefixime-sensitive…
Dynamic Transmission | Infectious Diseases | Decision Analysis | Risk Analysis | Health Systems | Policy/Regulation | Government/Law | Health/Medicine | Science/Technology | Global -
ReviewPublication 2017Use of Mathematical Models of Chlamydia Transmission to Address Public Health Policy Questions
This review provides an overview of chlamydia transmission models and offers perspective on how mathematical …
This review provides an overview of chlamydia transmission models and offers perspective on how mathematical modeling has responded over time to additional empirical evidence in order to address policy questions related to prevention of chlamydia infection. The authors reviewed published chlamydia models to understand the range of approaches used for policy analyses and how the studies have responded to developments in the field. The authors identified 47 publications reporting on 29 mathematical models through a…
Dynamic Transmission | Infectious Diseases | Mathematical Models | State-Transition | Clinical Care | Health/Medicine | North America -
Tools/ModelsPublication, Teaching Resource 2017Publicly Available Software Tools for Decision-Makers During an Emergent Epidemic
Epidemics and emerging infectious diseases are becoming an increasing threat to global populations-challenging public health …
Epidemics and emerging infectious diseases are becoming an increasing threat to global populations-challenging public health practitioners, decision makers and researchers to plan, prepare, identify and respond to outbreaks in near real-timeframes. The aim of this research is to evaluate the range of public domain and freely available software epidemic modelling tools. Twenty freely utilizable software tools underwent assessment of software usability, utility and key functionalities. Stochastic and agent based tools were found to be highly…
Dynamic Transmission | Infectious Diseases | Mathematical Models | Dynamic Simulation | Health Systems | Climate/Environment | Health/Medicine | Science/Technology | Global | Graduate | Doctoral | Professional | Quantitative Literacy -
ArticlePublication 2017Likelihood Approach for Calibration of Stochastic Epidemic Models
Stochastic transmission dynamic models are especially useful for studying the early emergence of novel pathogens …
Stochastic transmission dynamic models are especially useful for studying the early emergence of novel pathogens given the importance of chance events when the number of infectious individuals is small. However, methods for parameter estimation and prediction for these types of stochastic models remain limited. This paper describes a calibration and prediction framework for stochastic compartmental transmission models of epidemics. The proposed method applies a linear noise approximation to describe the size of the fluctuations, and…
Dynamic Transmission | Infectious Diseases | Calibration/Validation | Dynamic Simulation | Health Systems | Health/Medicine | Global