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Record W4388833424 · doi:10.1038/s41467-023-42680-x

Evaluation of the US COVID-19 Scenario Modeling Hub for informing pandemic response under uncertainty

2023· article· en· W4388833424 on OpenAlexaff
Emily Howerton, Lucie Contamin, Luke C. Mullany, Michelle Qin, Nicholas G Reich, Samantha J. Bents, Rebecca K. Borchering, Sung-mok Jung, Sara L. Loo, Claire P. Smith, John Levander, Jessica Kerr, Jeremy U. Espino, Willem G. van Panhuis, Harry Hochheiser, Marta Galanti, Teresa K. Yamana, Sen Pei, Jeffrey Shaman, Kaitlin Rainwater‐Lovett, Matt Kinsey, Kate Tallaksen, Shelby Wilson, Lauren Shin, Joseph C. Lemaitre, Joshua Kaminsky, Juan Dent, Elizabeth C. Lee, Clifton McKee, Alison L. Hill, D. Karlen, Matteo Chinazzi, Jessica T. Davis, Kunpeng Mu, Xinyue Xiong, Ana Pastore y Piontti, Alessandro Vespignani, Erik Rosenstrom, Julie S. Ivy, María E. Mayorga, Julie Swann, Guido España, Sean Cavany, Sean M. Moore, T. Alex Perkins, Thomas J. Hladish, Alexander N. Pillai, Kok Ben Toh, Ira M. Longini, Shi Chen, Rajib Paul, Daniel Janies, Jean‐Claude Thill, Anass Bouchnita, Kaiming Bi, Michael Lachmann, Spencer J. Fox, Lauren Ancel Meyers, Ajitesh Srivastava, Przemyslaw Porebski, Srini Venkatramanan, Aniruddha Adiga, Bryan Lewis, Brian Klahn, Joseph Outten, Benjamin Hurt, Jiangzhuo Chen, Henning Mortveit, Amanda Wilson, Madhav Marathe, Stefan Hoops, Parantapa Bhattacharya, Dustin Machi, Betsy L. Cadwell, Jessica M. Healy, Rachel B. Slayton, Michael A. Johansson, Matthew Biggerstaff, Shaun Truelove, Michael C. Runge, Katriona Shea, Cécile Viboud, Justin Lessler

Bibliographic record

VenueNature Communications · 2023
Typearticle
Languageen
FieldMathematics
TopicCOVID-19 epidemiological studies
Canadian institutionsUniversity of Victoria
FundersNational Center for Advancing Translational SciencesNational Institute of General Medical SciencesDefense Threat Reduction AgencyCenters for Disease Control and PreventionCouncil of State and Territorial EpidemiologistsJohns Hopkins UniversityU.S. Department of Health and Human ServicesNational Institutes of HealthSchweizerischer Nationalfonds zur Förderung der Wissenschaftlichen ForschungVirginia Department of HealthNational Science FoundationCalifornia Department of Public HealthU.S. Department of Homeland SecurityNational Institute of Allergy and Infectious DiseasesAmazon Web Services
KeywordsCoronavirus disease 2019 (COVID-19)Pandemic2019-20 coronavirus outbreakSevere acute respiratory syndrome coronavirus 2 (SARS-CoV-2)Coronavirus InfectionsBetacoronavirusComputer scienceVirologyData scienceMedicineOutbreakInfectious disease (medical specialty)

Abstract

fetched live from OpenAlex

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 specify the future state of critical epidemic drivers. Since December 2020, the U.S. COVID-19 Scenario Modeling Hub (SMH) has convened multiple modeling teams to make months ahead projections of SARS-CoV-2 burden, totaling nearly 1.8 million national and state-level projections. Here, we find SMH performance varied widely as a function of both scenario validity and model calibration. We show scenarios remained close to reality for 22 weeks on average before the arrival of unanticipated SARS-CoV-2 variants invalidated key assumptions. An ensemble of participating models that preserved variation between models (using the linear opinion pool method) was consistently more reliable than any single model in periods of valid scenario assumptions, while projection interval coverage was near target levels. SMH projections were used to guide pandemic response, illustrating the value of collaborative hubs for longer-term scenario projections.

Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.

How this classification was reachedexpand

Full frame distilled prediction

Teacher imitation

Not calibrated prevalence, not ground truth. Human validation pending. Learned from the 10,348 direct Codex labels and 10,348 direct Gemma labels. Candidate is the union of thresholded teacher heads; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels or direct frontier model labels.

metaresearch head score (Codex)0.014
metaresearch head score (Gemma)0.120
Version: codex-gemma-dda1882f352aValidation status: machine_predicted_unvalidated
Candidate categoriesMetaresearch
Consensus categoriesnone
DomainCandidate signal: none · Consensus signal: none
Study designCandidate signal: Simulation or modeling · Consensus signal: Simulation or modeling
GenreCandidate signal: Empirical · Consensus signal: Empirical
Teacher disagreement score0.177
Threshold uncertainty score0.887

Codex and Gemma teacher scores by category

CategoryCodexGemma
Metaresearch0.0140.120
Meta-epidemiology (narrow)0.0000.000
Meta-epidemiology (broad)0.0000.000
Bibliometrics0.0000.001
Science and technology studies0.0010.000
Scholarly communication0.0000.000
Open science0.0010.001
Research integrity0.0000.001
Insufficient payload (model declined to judge)0.0000.000

Machine scores (provisional)

The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.

Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.

Opus teacher head0.584
GPT teacher head0.546
Teacher spread0.037 · how far apart the two teachers sit on this one work
Validation statusscore_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from it

Classification

machine, unvalidated

Machine predicted; a candidate call from one teacher head, not a consensus.

Study designSimulation or modeling
Domainnot available
GenreEmpirical

How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".

Quick stats

Citations59
Published2023
Admission routes1
Has abstractyes

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