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  1. Artikel: Respiratory disease contact patterns in the US are stable but heterogeneous.

    Taube, Juliana C / Susswein, Zachary / Colizza, Vittoria / Bansal, Shweta

    medRxiv : the preprint server for health sciences

    2024  

    Abstract: Background: Contact plays a critical role in infectious disease transmission. Characterizing heterogeneity in contact patterns across individuals, time, and space is necessary to inform accurate estimates of transmission risk, particularly to explain ... ...

    Abstract Background: Contact plays a critical role in infectious disease transmission. Characterizing heterogeneity in contact patterns across individuals, time, and space is necessary to inform accurate estimates of transmission risk, particularly to explain superspreading, predict age differences in vulnerability, and inform social distancing policies. Current respiratory disease models often rely on data from the 2008 POLYMOD study conducted in Europe, which is now outdated and potentially unrepresentative of behavior in the US. We seek to understand the variation in contact patterns across spatial scales and demographic and social classifications, whether there is seasonality to contact patterns, and what social behavior looks like at baseline in the absence of an ongoing pandemic.
    Methods: We analyze spatiotemporal non-household contact patterns across 11 million survey responses from June 2020 - April 2021 post-stratified on age and gender to correct for sample representation. To characterize spatiotemporal heterogeneity in respiratory contact patterns at the county-week scale, we use generalized additive models. In the absence of pre-pandemic data on contact in the US, we also use a regression approach to produce baseline contact estimates to fill this gap.
    Findings: Although contact patterns varied over time during the pandemic, contact is relatively stable after controlling for disease. We find that the mean number of non-household contacts is spatially heterogeneous regardless of disease. There is additional heterogeneity across age, gender, race/ethnicity, and contact setting, with mean contact decreasing with age and lower in women. The contacts of white individuals and contacts at work or social events change the most under increased national incidence.
    Interpretation: We develop the first county-level estimates of non-pandemic contact rates for the US that can fill critical gaps in parameterizing disease models. Our results identify that spatiotemporal, demographic, and social heterogeneity in contact patterns is highly structured, informing the risk landscape of respiratory disease transmission in the US.
    Sprache Englisch
    Erscheinungsdatum 2024-04-28
    Erscheinungsland United States
    Dokumenttyp Preprint
    DOI 10.1101/2024.04.26.24306450
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

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  2. Artikel ; Online: Epidemic graph diagrams as analytics for epidemic control in the data-rich era.

    Valdano, Eugenio / Colombi, Davide / Poletto, Chiara / Colizza, Vittoria

    Nature communications

    2023  Band 14, Heft 1, Seite(n) 8472

    Abstract: COVID-19 highlighted modeling as a cornerstone of pandemic response. But it also revealed that current models may not fully exploit the high-resolution data on disease progression, epidemic surveillance and host behavior, now available. Take the epidemic ...

    Abstract COVID-19 highlighted modeling as a cornerstone of pandemic response. But it also revealed that current models may not fully exploit the high-resolution data on disease progression, epidemic surveillance and host behavior, now available. Take the epidemic threshold, which quantifies the spreading risk throughout epidemic emergence, mitigation, and control. Its use requires oversimplifying either disease or host contact dynamics. We introduce the epidemic graph diagrams to overcome this by computing the epidemic threshold directly from arbitrarily complex data on contacts, disease and interventions. A grammar of diagram operations allows to decompose, compare, simplify models with computational efficiency, extracting theoretical understanding. We use the diagrams to explain the emergence of resistant influenza variants in the 2007-2008 season, and demonstrate that neglecting non-infectious prodromic stages of sexually transmitted infections biases the predicted epidemic risk, compromising control. The diagrams are general, and improve our capacity to respond to present and future public health challenges.
    Mesh-Begriff(e) Humans ; Influenza, Human/epidemiology ; Influenza, Human/prevention & control ; Pandemics/prevention & control ; Public Health ; COVID-19/epidemiology ; COVID-19/prevention & control
    Sprache Englisch
    Erscheinungsdatum 2023-12-20
    Erscheinungsland England
    Dokumenttyp Journal Article
    ZDB-ID 2553671-0
    ISSN 2041-1723 ; 2041-1723
    ISSN (online) 2041-1723
    ISSN 2041-1723
    DOI 10.1038/s41467-023-43856-1
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

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  3. Buch ; Online: Limited data on infectious disease distribution exposes ambiguity in epidemic modeling choices

    Di Domenico, Laura / Valdano, Eugenio / Colizza, Vittoria

    2024  

    Abstract: Traditional disease transmission models assume that the infectious period is exponentially distributed with a recovery rate fixed in time and across individuals. This assumption provides analytical and computational advantages, however it is often ... ...

    Abstract Traditional disease transmission models assume that the infectious period is exponentially distributed with a recovery rate fixed in time and across individuals. This assumption provides analytical and computational advantages, however it is often unrealistic. Efforts in modeling non-exponentially distributed infectious periods are either limited to special cases or lead to unsolvable models. Also, the link between empirical data (infectious period distribution) and the modeling needs (corresponding recovery rates) lacks a clear understanding. Here we introduce a mapping of an arbitrary distribution of infectious periods into a distribution of recovery rates. We show that the same infectious period distribution at the population level can be reproduced by two modeling schemes -- host-based and population-based -- depending on the individual response to the infection, and aggregated empirical data cannot easily discriminate the correct scheme. Besides being conceptually different, the two schemes also lead to different epidemic trajectories. Although sharing the same behavior close to the disease-free equilibrium, the host-based scheme deviates from the expected epidemic when reaching the endemic equilibrium of an SIS transmission model, while the population-based scheme turns out to be equivalent to assuming a homogeneous recovery rate. We show this through analytical computations and stochastic epidemic simulations on a contact network, using both generative network models and empirical contact data. It is therefore possible to reproduce heterogeneous infectious periods in network-based transmission models, however the resulting prevalence is sensitive to the modeling choice for the interpretation of the empirically collected data on infection duration. In absence of higher resolution data, studies should acknowledge such deviations in the epidemic predictions.
    Schlagwörter Quantitative Biology - Populations and Evolution ; Physics - Physics and Society
    Thema/Rubrik (Code) 612
    Erscheinungsdatum 2024-01-26
    Erscheinungsland us
    Dokumenttyp Buch ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  4. Artikel ; Online: The impact of spatial connectivity on NPIs effectiveness.

    Sabbatini, Chiara E / Pullano, Giulia / Di Domenico, Laura / Rubrichi, Stefania / Bansal, Shweta / Colizza, Vittoria

    BMC infectious diseases

    2024  Band 24, Heft 1, Seite(n) 21

    Abstract: Background: France implemented a combination of non-pharmaceutical interventions (NPIs) to manage the COVID-19 pandemic between September 2020 and June 2021. These included a lockdown in the fall 2020 - the second since the start of the pandemic - to ... ...

    Abstract Background: France implemented a combination of non-pharmaceutical interventions (NPIs) to manage the COVID-19 pandemic between September 2020 and June 2021. These included a lockdown in the fall 2020 - the second since the start of the pandemic - to counteract the second wave, followed by a long period of nighttime curfew, and by a third lockdown in the spring 2021 against the Alpha wave. Interventions have so far been evaluated in isolation, neglecting the spatial connectivity between regions through mobility that may impact NPI effectiveness.
    Methods: Focusing on September 2020-June 2021, we developed a regionally-based epidemic metapopulation model informed by observed mobility fluxes from daily mobile phone data and fitted the model to regional hospital admissions. The model integrated data on vaccination and variants spread. Scenarios were designed to assess the impact of the Alpha variant, characterized by increased transmissibility and risk of hospitalization, of the vaccination campaign and alternative policy decisions.
    Results: The spatial model better captured the heterogeneity observed in the regional dynamics, compared to models neglecting inter-regional mobility. The third lockdown was similarly effective to the second lockdown after discounting for immunity, Alpha, and seasonality (51% vs 52% median regional reduction in the reproductive number R
    Conclusions: Spatial connectivity induced by mobility impacted the effectiveness of interventions especially in regions with higher mobility rates. Early evening curfew with gastronomy sector closed allowed authorities to delay the third wave. Stop-and-go lockdowns could have substantially lowered both healthcare and societal burdens if implemented early enough, compared to the observed application of lockdown-curfew-lockdown, but likely at the expense of several labor sectors. These findings contribute to characterize the effectiveness of implemented strategies and improve pandemic preparedness.
    Mesh-Begriff(e) Humans ; Pandemics/prevention & control ; COVID-19/epidemiology ; COVID-19/prevention & control ; Cell Phone ; France/epidemiology ; Health Facilities
    Sprache Englisch
    Erscheinungsdatum 2024-01-02
    Erscheinungsland England
    Dokumenttyp Journal Article
    ZDB-ID 2041550-3
    ISSN 1471-2334 ; 1471-2334
    ISSN (online) 1471-2334
    ISSN 1471-2334
    DOI 10.1186/s12879-023-08900-x
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

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  5. Artikel ; Online: Modelling COVID-19 in school settings to evaluate prevention and control protocols.

    Colosi, Elisabetta / Bassignana, Giulia / Barrat, Alain / Colizza, Vittoria

    Anaesthesia, critical care & pain medicine

    2022  Band 41, Heft 2, Seite(n) 101047

    Mesh-Begriff(e) COVID-19 ; Humans ; SARS-CoV-2
    Sprache Englisch
    Erscheinungsdatum 2022-02-28
    Erscheinungsland France
    Dokumenttyp Editorial
    ISSN 2352-5568
    ISSN (online) 2352-5568
    DOI 10.1016/j.accpm.2022.101047
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

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  6. Artikel: The missing season: The impacts of the COVID-19 pandemic on influenza

    Zipfel, Casey M / Colizza, Vittoria / Bansal, Shweta

    Vaccine. 2021 June 23, v. 39, no. 28

    2021  

    Abstract: Throughout the COVID-19 pandemic, many have worried that the additional burden of seasonal influenza would create a devastating scenario, resulting in overwhelmed healthcare capacities and further loss of life. However, many were pleasantly surprised: ... ...

    Abstract Throughout the COVID-19 pandemic, many have worried that the additional burden of seasonal influenza would create a devastating scenario, resulting in overwhelmed healthcare capacities and further loss of life. However, many were pleasantly surprised: the 2020 Southern Hemisphere and 2020–2021 Northern Hemisphere influenza seasons were entirely suppressed. The potential causes and impacts of this drastic public health shift are highly uncertain, but provide lessons about future control of respiratory diseases, especially for the upcoming influenza season.
    Schlagwörter COVID-19 infection ; health services ; influenza ; public health ; vaccines
    Sprache Englisch
    Erscheinungsverlauf 2021-0623
    Umfang p. 3645-3648.
    Erscheinungsort Elsevier Ltd
    Dokumenttyp Artikel
    ZDB-ID 605674-x
    ISSN 1873-2518 ; 0264-410X
    ISSN (online) 1873-2518
    ISSN 0264-410X
    DOI 10.1016/j.vaccine.2021.05.049
    Datenquelle NAL Katalog (AGRICOLA)

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  7. Artikel ; Online: Spatial aggregation choice in the era of digital and administrative surveillance data.

    Lee, Elizabeth C / Arab, Ali / Colizza, Vittoria / Bansal, Shweta

    PLOS digital health

    2022  Band 1, Heft 6, Seite(n) e0000039

    Abstract: Traditional disease surveillance is increasingly being complemented by data from non-traditional sources like medical claims, electronic health records, and participatory syndromic data platforms. As non-traditional data are often collected at the ... ...

    Abstract Traditional disease surveillance is increasingly being complemented by data from non-traditional sources like medical claims, electronic health records, and participatory syndromic data platforms. As non-traditional data are often collected at the individual-level and are convenience samples from a population, choices must be made on the aggregation of these data for epidemiological inference. Our study seeks to understand the influence of spatial aggregation choice on our understanding of disease spread with a case study of influenza-like illness in the United States. Using U.S. medical claims data from 2002 to 2009, we examined the epidemic source location, onset and peak season timing, and epidemic duration of influenza seasons for data aggregated to the county and state scales. We also compared spatial autocorrelation and tested the relative magnitude of spatial aggregation differences between onset and peak measures of disease burden. We found discrepancies in the inferred epidemic source locations and estimated influenza season onsets and peaks when comparing county and state-level data. Spatial autocorrelation was detected across more expansive geographic ranges during the peak season as compared to the early flu season, and there were greater spatial aggregation differences in early season measures as well. Epidemiological inferences are more sensitive to spatial scale early on during U.S. influenza seasons, when there is greater heterogeneity in timing, intensity, and geographic spread of the epidemics. Users of non-traditional disease surveillance should carefully consider how to extract accurate disease signals from finer-scaled data for early use in disease outbreaks.
    Sprache Englisch
    Erscheinungsdatum 2022-06-03
    Erscheinungsland United States
    Dokumenttyp Journal Article
    ISSN 2767-3170
    ISSN (online) 2767-3170
    DOI 10.1371/journal.pdig.0000039
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

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  8. Artikel: Evaluating COVID-19 Booster Vaccination Strategies in a Partially Vaccinated Population: A Modeling Study.

    Massonnaud, Clément R / Roux, Jonathan / Colizza, Vittoria / Crépey, Pascal

    Vaccines

    2022  Band 10, Heft 3

    Abstract: Background: Several countries are implementing COVID-19 booster vaccination campaigns. The objective of this study was to model the impact of different primary and booster vaccination strategies.: Methods: We used a compartmental model fitted to ... ...

    Abstract Background: Several countries are implementing COVID-19 booster vaccination campaigns. The objective of this study was to model the impact of different primary and booster vaccination strategies.
    Methods: We used a compartmental model fitted to hospital admission data in France to analyze the impact of primary and booster vaccination strategies on morbidity and mortality, assuming waning of immunity and various levels of virus transmissibility during winter.
    Results: Strategies prioritizing primary vaccinations were systematically more effective than strategies prioritizing boosters. Regarding booster strategies targeting different age groups, their effectiveness varied with immunity and virus transmissibility levels. If the waning of immunity affects all adults, people aged 30 to 49 years should be boosted in priority, even for low transmissibility levels.
    Conclusions: Increasing the primary vaccination coverage should remain a priority. If a plateau has been reached, boosting the immunity of younger adults could be the most effective strategy, especially if SARS-CoV-2 transmissibility is high.
    Sprache Englisch
    Erscheinungsdatum 2022-03-19
    Erscheinungsland Switzerland
    Dokumenttyp Journal Article
    ZDB-ID 2703319-3
    ISSN 2076-393X
    ISSN 2076-393X
    DOI 10.3390/vaccines10030479
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

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  9. Artikel ; Online: Modeling the impact of national and regional lockdowns on the 2020 spring wave of COVID-19 in France.

    Roux, Jonathan / Massonnaud, Clément R / Colizza, Vittoria / Cauchemez, Simon / Crépey, Pascal

    Scientific reports

    2023  Band 13, Heft 1, Seite(n) 1834

    Abstract: Several countries have implemented lockdowns to control their COVID-19 epidemic. However, questions like "where" and "when" still require answers. We assessed the impact of national and regional lockdowns considering the French first epidemic wave of ... ...

    Abstract Several countries have implemented lockdowns to control their COVID-19 epidemic. However, questions like "where" and "when" still require answers. We assessed the impact of national and regional lockdowns considering the French first epidemic wave of COVID-19 as a case study. In a regional lockdown scenario aimed at preventing intensive care units (ICU) saturation, almost all French regions would have had to implement a lockdown within 10 days and 96% of ICU capacities would have been used. For slowly growing epidemics, with a lower reproduction number, the expected delays between regional lockdowns increase. However, the public health costs associated with these delays tend to grow with time. In a quickly growing pandemic wave, defining the timing of lockdowns at a regional rather than national level delays by a few days the implementation of a nationwide lockdown but leads to substantially higher morbidity, mortality, and stress on the healthcare system.
    Mesh-Begriff(e) Humans ; COVID-19/epidemiology ; COVID-19/prevention & control ; SARS-CoV-2 ; Quarantine ; Communicable Disease Control ; Pandemics/prevention & control ; France/epidemiology
    Sprache Englisch
    Erscheinungsdatum 2023-02-01
    Erscheinungsland England
    Dokumenttyp Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2615211-3
    ISSN 2045-2322 ; 2045-2322
    ISSN (online) 2045-2322
    ISSN 2045-2322
    DOI 10.1038/s41598-023-28687-w
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

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  10. Artikel ; Online: Global patterns and drivers of influenza decline during the COVID-19 pandemic.

    Bonacina, Francesco / Boëlle, Pierre-Yves / Colizza, Vittoria / Lopez, Olivier / Thomas, Maud / Poletto, Chiara

    International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases

    2023  Band 128, Seite(n) 132–139

    Abstract: Objectives: The influenza circulation reportedly declined during the COVID-19 pandemic in many countries. The occurrence of this change has not been studied worldwide nor its potential drivers.: Methods: The change in the proportion of positive ... ...

    Abstract Objectives: The influenza circulation reportedly declined during the COVID-19 pandemic in many countries. The occurrence of this change has not been studied worldwide nor its potential drivers.
    Methods: The change in the proportion of positive influenza samples reported by country and trimester was computed relative to the 2014-2019 period using the FluNet database. Random forests were used to determine predictors of change from demographical, weather, pandemic preparedness, COVID-19 incidence, and pandemic response characteristics. Regression trees were used to classify observations according to these predictors.
    Results: During the COVID-19 pandemic, the influenza decline relative to prepandemic levels was global but heterogeneous across space and time. It was more than 50% for 311 of 376 trimesters-countries and even more than 99% for 135. COVID-19 incidence and pandemic preparedness were the two most important predictors of the decline. Europe and North America initially showed limited decline despite high COVID-19 restrictions; however, there was a strong decline afterward in most temperate countries, where pandemic preparedness, COVID-19 incidence, and social restrictions were high; the decline was limited in countries where these factors were low. The "zero-COVID" countries experienced the greatest decline.
    Conclusion: Our findings set the stage for interpreting the resurgence of influenza worldwide.
    Mesh-Begriff(e) Humans ; Influenza, Human/epidemiology ; COVID-19/epidemiology ; Pandemics ; North America ; Weather
    Sprache Englisch
    Erscheinungsdatum 2023-01-03
    Erscheinungsland Canada
    Dokumenttyp Journal Article
    ZDB-ID 1331197-9
    ISSN 1878-3511 ; 1201-9712
    ISSN (online) 1878-3511
    ISSN 1201-9712
    DOI 10.1016/j.ijid.2022.12.042
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

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