• Corpus ID: 219179349

A quantitative compendium of COVID-19 epidemiology

@article{BarOn2020AQC,
  title={A quantitative compendium of COVID-19 epidemiology},
  author={Y. Bar-On and Ron Sender and Avi I. Flamholz and Rob Phillips and Ron Milo},
  journal={arXiv: Other Quantitative Biology},
  year={2020}
}
Accurate numbers are needed to understand and predict viral dynamics. Curation of high-quality literature values for the infectious period duration or household secondary attack rate, for example, is especially pressing currently because these numbers inform decisions about how and when to lockdown or reopen societies. We aim to provide a curated source for the key numbers that help us understand the virus driving our current global crisis. This compendium focuses solely on COVID-19… 

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References

SHOWING 1-10 OF 56 REFERENCES
Test sensitivity is secondary to frequency and turnaround time for COVID-19 surveillance
TLDR
It is concluded that surveillance should prioritize accessibility, frequency, and sample-to-answer time; analytical limits of detection should be secondary.
A New Framework and Software to Estimate Time-Varying Reproduction Numbers During Epidemics
TLDR
This tool produces novel, statistically robust analytical estimates of R that incorporates uncertainty in the distribution of the serial interval and should help epidemiologists quantify temporal changes in the transmission intensity of future epidemics by using surveillance data.
Quantifying SARS-CoV-2 transmission suggests epidemic control with digital contact tracing
TLDR
A mathematical model for infectiousness was developed to estimate the basic reproductive number R0 and to quantify the contribution of different transmission routes and the requirements for successful contact tracing, and the combination of two key parameters needed to reduce R0 to less than 1 was determined.
Improved inference of time-varying reproduction numbers during infectious disease outbreaks
Report 3: Transmissibility of 2019-nCoV
TLDR
Self-sustaining human-to-human transmission of the novel coronavirus (2019-nCov) is the only plausible explanation of the scale of the outbreak in Wuhan and it is unclear at the current time whether this outbreak can be contained within China.
Superspreading and the effect of individual variation on disease emergence
TLDR
It is shown that contact tracing data from eight directly transmitted diseases shows that the distribution of individual infectiousness around R0 is often highly skewed, and implications for outbreak control are explored, showing that individual-specific control measures outperform population-wide measures.
Estimating clinical severity of COVID-19 from the transmission dynamics in Wuhan, China
TLDR
An estimation of the clinical severity of COVID-19, based on the data available so far, can help to inform the public health response during the ongoing SARS-CoV-2 pandemic.
Epidemiology and Transmission of COVID-19 in Shenzhen China: Analysis of 391 cases and 1,286 of their close contacts
TLDR
This work shows that heightened surveillance and isolation, particularly contact tracing, reduces the time cases are infectious in the community, thereby reducing R.CoV-2's overall impact, however, its overall impact is uncertain and highly dependent on the number of asymptomatic cases.
Household transmissions of SARS-CoV-2 in the time of unprecedented travel lockdown in China
TLDR
This report is the first large-scale analysis of the household and social transmission events in the COVID-19 pandemic and finds young and older people have higher risks of being infected with households while males 65+ of age are responsible for a disproportionate number of household infections.
...
...