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Chapter and Conference Paper
The C3C Game: Serious Games and Community-Centered Design for Improved Pandemic Decision Making
Serious games have long been used in domains like defense, management, finance, and environmental protection to improve plans and procedures. In the aftermath of the COVID-19 pandemic, public health and emerge...
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Article
Open AccessEvaluation of the US COVID-19 Scenario Modeling Hub for informing pandemic response under uncertainty
Our ability to forecast epidemics far into the future is constrained by the many complexities of disease systems. Realistic longer-term projections may, however, be possible under well-defined scenarios that s...
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Article
Open AccessReal time monitoring of COVID-19 intervention effectiveness through contact tracing data
Communities worldwide have used vaccines and facemasks to mitigate the COVID-19 pandemic. When an individual opts to vaccinate or wear a mask, they may lower their own risk of becoming infected as well as the ...
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Article
Open AccessDesign of COVID-19 staged alert systems to ensure healthcare capacity with minimal closures
Community mitigation strategies to combat COVID-19, ranging from healthy hygiene to shelter-in-place orders, exact substantial socioeconomic costs. Judicious implementation and relaxation of restrictions ampli...
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Article
Selecting pharmacies for COVID-19 testing to ensure access
Rapid diagnostic testing for COVID-19 is key to guiding social distancing orders and containing emerging disease clusters by contact tracing and isolation. However, communities throughout the US do not yet hav...
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Article
Open AccessModeling mitigation of influenza epidemics by baloxavir
Influenza viruses annually kill 290,000–650,000 people worldwide. Antivirals can reduce death tolls. Baloxavir, the recently approved influenza antiviral, inhibits initiation of viral mRNA synthesis, whereas o...
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Article
Open AccessCouple serostatus patterns in sub-Saharan Africa illuminate the relative roles of transmission rates and sexual network characteristics in HIV epidemiology
HIV prevalence has surpassed 30% in some African countries while peaking at less than 1% in others. The extent to which this variation is driven by biological factors influencing the HIV transmission rate or b...
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Article
Open AccessThe cost-effectiveness of oral HIV pre-exposure prophylaxis and early antiretroviral therapy in the presence of drug resistance among men who have sex with men in San Francisco
Poor adherence to either antiretroviral treatment (ART) or pre-exposure prophylaxis (PrEP) can promote drug resistance, though this risk is thought to be considerably higher for ART. In the population of men w...
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Article
Open AccessEstimation of single-year-of-age counts of live births, fetal losses, abortions, and pregnant women for counties of Texas
We provide a methodology for estimating counts of single-year-of-age live-births, fetal-losses, abortions, and pregnant women from aggregated age-group counts. As a case study, we estimate counts for the 254 c...
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Article
Open AccessAssessing real-time Zika risk in the United States
Confirmed local transmission of Zika Virus (ZIKV) in Texas and Florida have heightened the need for early and accurate indicators of self-sustaining transmission in high risk areas across the southern United S...
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Article
Open AccessEnhancing disease surveillance with novel data streams: challenges and opportunities
Novel data streams (NDS), such as web search data or social media updates, hold promise for enhancing the capabilities of public health surveillance. In this paper, we outline a conceptual framework for integr...
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Article
Erratum to: Impact of Imitation Processes on the Effectiveness of Ring Vaccination
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Article
Open AccessSimulating school closure policies for cost effective pandemic decision making
Around the globe, school closures were used sporadically to mitigate the 2009 H1N1 influenza pandemic. However, such closures can detrimentally impact economic and social life.
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Article
Open AccessEpiFire: An open source C++ library and application for contact network epidemiology
Contact network models have become increasingly common in epidemiology, but we lack a flexible programming framework for the generation and analysis of epidemiological contact networks and for the simulation o...
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Article
Open AccessVaccination against 2009 pandemic H1N1 in a population dynamical model of Vancouver, Canada: timing is everything
Much remains unknown about the effect of timing and prioritization of vaccination against pandemic (pH1N1) 2009 virus on health outcomes. We adapted a city-level contact network model to study different campai...
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Article
Impact of Imitation Processes on the Effectiveness of Ring Vaccination
Ring vaccination can be a highly effective control strategy for an emerging disease or in the final phase of disease eradication, as witnessed in the eradication of smallpox. However, the impact of behavioural...
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Article
Open AccessOptimal H1N1 vaccination strategies based on self-interest versus group interest
Influenza vaccination is vital for reducing H1N1 infection-mediated morbidity and mortality. To reduce transmission and achieve herd immunity during the initial 2009-2010 pandemic season, the US Centers for Di...
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Article
Open AccessExploring biological network structure with clustered random networks
Complex biological systems are often modeled as networks of interacting units. Networks of biochemical interactions among proteins, epidemiological contacts among hosts, and trophic interactions in ecosystems,...
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Article
The Robustness of Naturally and Artificially Selected Nucleic Acid Secondary Structures
Thermodynamic stability and mutational robustness of secondary structure are critical to the function and evolutionary longevity of RNA molecules. We hypothesize that natural and artificial selection for funct...