A Data-Informed Approach for Analysis, Validation, and Identification of COVID-19 Models

  1. S. Yagiz Olmez
  2. Jameson Mori
  3. Erik Miehling
  4. Tamer Başar
  5. Rebecca L. Smith
  6. Matthew West
  7. Prashant G. Mehta

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Abstract

The COVID-19 pandemic has generated an enormous amount of data, providing a unique opportunity for modeling and analysis. In this paper, we present a data-informed approach for building stochastic compartmental models that is grounded in the Markovian processes underlying these models. Our initial data analyses reveal that the SIRD model – susceptiple (S), infected (I), recovered (R), and death (D) – is not consistent with the data. In particular, the transition times expressed in the dataset do not obey exponential distributions, implying that there exist unmodeled (hidden) states. We make use of the available epidemiological data to inform the location of these hidden states, allowing us to develop an augmented compartmental model which includes states for hospitalization (H) and end of infectious viral shedding (V). Using the proposed model, we characterize delay distributions analytically and match model parameters to empirical quantities in the data to obtain a good model fit. Insights from an epidemiological perspective are presented, as well as their implications for mitigation and control strategies.

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  1. ScreenIT

    SciScore for 10.1101/2020.10.03.20206250: (What is this?)

    Please note, not all rigor criteria are appropriate for all manuscripts.

    Table 1: Rigor

    Institutional Review Board Statementnot detected.
    Randomizationnot detected.
    Blindingnot detected.
    Power Analysisnot detected.
    Sex as a biological variablenot detected.

    Table 2: Resources

    No key resources detected.

    Results from OddPub: Thank you for sharing your code and data.

    Results from LimitationRecognizer: An explicit section about the limitations of the techniques employed in this study was not found. We encourage authors to address study limitations.

    Results from TrialIdentifier: No clinical trial numbers were referenced.

    Results from Barzooka: We did not find any issues relating to the usage of bar graphs.

    Results from JetFighter: We did not find any issues relating to colormaps.

    Results from rtransparent:
    • Thank you for including a conflict of interest statement. Authors are encouraged to include this statement when submitting to a journal.
    • Thank you for including a funding statement. Authors are encouraged to include this statement when submitting to a journal.
    • No protocol registration statement was detected.

    About SciScore

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  2. Version published to 10.1101/2020.10.03.20206250 on medRxiv