S1 Dataset for "Transmission Dynamics of Zika Virus in Island Populations: A Modelling Analysis of the 2013–14 French Polynesia Outbreak"
Kucharski, AJ
; Funk, S; Eggo, RM; Mallet, H; Edmunds, WJ and Nilles, EJ
(2016).
S1 Dataset for "Transmission Dynamics of Zika Virus in Island Populations: A Modelling Analysis of the 2013–14 French Polynesia Outbreak".
[Dataset].
PLoS Neglected Tropical Diseases.
https://doi.org/10.1371/journal.pntd.0004726.s016
; Funk, S; Eggo, RM; Mallet, H; Edmunds, WJ and Nilles, EJ
(2016).
S1 Dataset for "Transmission Dynamics of Zika Virus in Island Populations: A Modelling Analysis of the 2013–14 French Polynesia Outbreak".
[Dataset].
PLoS Neglected Tropical Diseases.
https://doi.org/10.1371/journal.pntd.0004726.s016
Raw data used for the analysis performed in the accompanying paper. Dataset contains number of suspected cases, number of sentinel sites reporting, and proportion of total sentinel sites reporting (i.e. κt) in each week for each of the six regions.
Keywords
Zika virus; French Polynesia; Mosquitoes; Guillain-Barre syndrome; Mathematical models; Microcephaly; Demography; Dengue virus; Zika| Item Type | Dataset |
|---|---|
| Resource Type |
Resource Type Resource Description Dataset Quantitative |
| Description of data capture | We used weekly reported numbers of suspected ZIKV infections from the six main regions of French Polynesia between 11th October 2013 and 28th March 2014, as detailed in the Centre d’hygiène et de salubrité publique situation reports. Confirmed and suspected cases were reported from sentinel surveillance sites across the country; the number of such sentinel sites varied in number from 27–55 during the outbreak (raw data are provided in S1 Dataset). Clinical cases were defined as suspected cases if they presented to health practitioners with rash and/or mild fever and at least two of the following signs: conjunctivitis, arthralgia, or oedema. Suspected cases were defined as a confirmed case if they tested positive by RT-PCR on blood or saliva. In total, 8,744 suspected cases were reported from the sentinel sites. As there were 162 healthcare sites across all six regions, it has been estimated that around 30,000 suspected cases attended health facilities in total For each region, we calculated the proportion of total sites that acted as sentinels, to allow us to adjust for variation in reporting over time in the analysis. Population size data were taken from the 2012 French Polynesia Census. In our analysis, the first week with at least one reported case was used as the first observation date. We used a compartmental mathematical model to simulate vector-borne transmission. Both people and mosquitoes were modelled using a susceptible-exposed-infectious-removed (SEIR) framework. This model incorporated delays as a result of the intrinsic (human) and extrinsic (vector) incubation periods (Fig 1). Since there is evidence that asymptomatic DENV-infected individuals are capable of transmitting DENV to mosquitoes [26], we assumed the same for ZIKV: all people in the model transmitted the same, regardless of whether they displayed symptoms or were reported as cases. |
| Capture method | Simulation |
| Date | 17 May 2016 |
| Language(s) of written materials | English |
| Creator(s) |
Kucharski, AJ; Funk, S; Eggo, RM; Mallet, H; Edmunds, WJ and Nilles, EJ
|
| LSHTM Faculty/Department | Faculty of Epidemiology and Population Health > Dept of Infectious Disease Epidemiology (-2023) |
| Participating Institutions | London School of Hygiene & Tropical Medicine, London, United Kingdom; Bureau de Veille Sanitaire, Direction de la Santé, Polynésie française; World Health Organization, Suva, Fiji |
| Funders |
Project Funder Grant Number Funder URI |
| Date Deposited | 23 Jun 2016 10:44 |
| Last Modified | 27 Apr 2022 18:19 |
| Publisher | PLoS Neglected Tropical Diseases |
Data / Code
S1_Dataset.csv
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subject - Data
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- Available under Creative Commons: Attribution 3.0
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info - Raw data used in the analysis. Dataset contains number of suspected cases, number of sentinel sites reporting, and proportion of total sentinel sites reporting (i.e. κt) in each week for each of the six regions studied.
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