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Summary: The CoV-Spectrum website supports the identification of new SARS-CoV-2 variants of concern and the tracking of known variants. Its flexible amino acid and nucleotide mutation search allows querying of variants before they are…
Mathematical models of SARS-CoV-2 spread are used for guiding the design of mitigation steps aimed at containing and decelerating the contagion, and at identifying impending breaches of health care system surge capacity. The challenges of…
Despite the importance of sparsity signal models and the increasing prevalence of high-dimensional streaming data, there are relatively few algorithms for dynamic filtering of time-varying sparse signals. Of the existing algorithms, fewer…
The use of in-situ digital sensors for water quality monitoring is becoming increasingly common worldwide. While these sensors provide near real-time data for science, the data are prone to technical anomalies that can undermine the…
This chapter surveys univariate and multivariate methods for infectious disease outbreak detection. The setting considered is a prospective one: data arrives sequentially as part of the surveillance systems maintained by public health…
Repeated asymptomatic screening for SARS-CoV-2 promises to control spread of the virus but would require too many resources to implement at scale. Group testing is promising for screening more people with fewer test resources: multiple…
Structural regularities in man-made environments reflect in the distribution of their surface normals. Describing these surface normal distributions is important in many computer vision applications, such as scene understanding, plane…
The global pandemic of the 2019-nCov requires the evaluation of policy interventions to mitigate future social and economic costs of quarantine measures worldwide. We propose an epidemiological model for forecasting and policy evaluation…
COVID-19 pandemic has reshaped our world in a timescale much shorter than what we can understand. Particularities of SARS-CoV-2, such as its persistence in surfaces and the lack of a curative treatment or vaccine against COVID-19, have…
In a typical Event-Based Surveillance setting, a stream of web documents is continuously monitored for disease reporting. A structured representation of the disease reporting events is extracted from the raw text, and the events are then…
Epidemiological models have tremendous potential to forecast disease burden and quantify the impact of interventions. Detailed models are increasingly popular, however these models tend to be stochastic and very costly to evaluate.…
During 2020 and 2021, severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) transmission has been increasing amongst the world's population at an alarming rate. Reducing the spread of SARS-CoV-2 and other diseases that are spread in…
Computer malware and biological pathogens often use similar mechanisms of infections. For this reason, it has been suggested to model malware spread using epidemiological models developed to characterize the spread of biological pathogens.…
Since December 2019 the novel coronavirus SARS-CoV-2 has been identified as the cause of the pandemic COVID-19. Early symptoms overlap with other common conditions such as common cold and Influenza, making early screening and diagnosis are…
Optimal sensor placement (SP) usually minimizes an impact measure, such as the amount of contaminated water or the number of inhabitants affected before detection. The common choice is to minimize the minimum detection time (MDT) averaged…
The effective reproduction number is an important descriptor of an infectious disease epidemic. In small populations, ideally we would estimate the effective reproduction number using a Markov Jump Process (MJP) model of the spread of…
Global pandemics, such as the recent COVID-19 crisis, highlight the need for stochastic epidemic models that can capture the randomness inherent in the spread of disease. Such models must be accompanied by methods for estimating parameters…
The clinical spectrum of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the strain of coronavirus that caused the COVID-19 pandemic, is broad, extending from asymptomatic infection to severe immunopulmonary reactions that, if…
We investigate phase transitions associated with three control methods for epidemics on small world networks. Motivated by the behavior of SARS-CoV-2, we construct a theoretical SIR model of a virus that exhibits presymptomatic,…
The novel coronavirus (SARS-CoV-2) has led to a pandemic. The current testing regime based on Reverse Transcription-Polymerase Chain Reaction for SARS-CoV-2 has been unable to keep up with testing demands, and also suffers from a relatively…