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  1. Article ; Online: Altered demographic profile of hospitalizations during the second COVID-19 wave in Amazonas, Brazil

    Charles Whittaker / Oliver Ratmann / Christopher Dye / Ester C. Sabino / Nuno R. Faria

    The Lancet Regional Health. Americas, Vol 2, Iss , Pp 100064- (2021)

    2021  

    Keywords SARS-CoV-2 ; Gamma VOC ; age-stratified severity ; Manaus ; Brazil ; Public aspects of medicine ; RA1-1270
    Language English
    Publishing date 2021-10-01T00:00:00Z
    Publisher Elsevier
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  2. Article ; Online: Chikungunya

    William M. de Souza / Guilherme S. Ribeiro / Shirlene T.S. de Lima / Ronaldo de Jesus / Filipe R.R. Moreira / Charles Whittaker / Maria Anice M. Sallum / Christine V.F. Carrington / Ester C. Sabino / Uriel Kitron / Nuno R. Faria / Scott C. Weaver

    The Lancet Regional Health. Americas, Vol 30, Iss , Pp 100673- (2024)

    a decade of burden in the Americas

    2024  

    Abstract: Summary: In the Americas, one decade following its emergence in 2013, chikungunya virus (CHIKV) continues to spread and cause epidemics across the region. To date, 3.7 million suspected and laboratory-confirmed chikungunya cases have been reported in 50 ... ...

    Abstract Summary: In the Americas, one decade following its emergence in 2013, chikungunya virus (CHIKV) continues to spread and cause epidemics across the region. To date, 3.7 million suspected and laboratory-confirmed chikungunya cases have been reported in 50 countries or territories in the Americas. Here, we outline the current status and epidemiological aspects of chikungunya in the Americas and discuss prospects for future research and public health strategies to combat CHIKV in the region.
    Keywords Chikungunya virus ; Arbovirus ; Mosquito-borne virus ; Alphavirus ; Americas ; Public aspects of medicine ; RA1-1270
    Language English
    Publishing date 2024-02-01T00:00:00Z
    Publisher Elsevier
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  3. Article ; Online: Dataset on SARS-CoV-2 non-pharmaceutical interventions in Brazilian municipalities

    Andreza Aruska de Souza Santos / Darlan da Silva Candido / William Marciel de Souza / Lewis Buss / Sabrina L. Li / Rafael H. M. Pereira / Chieh-Hsi Wu / Ester C. Sabino / Nuno R. Faria

    Scientific Data, Vol 8, Iss 1, Pp 1-

    2021  Volume 6

    Abstract: Measurement(s) prevention and control intervention • SARS-CoV-2 non-pharmaceutical interventions Technology Type(s) Survey Sample Characteristic - Location Brazil Machine-accessible metadata file describing the reported data: https://doi.org/10.6084/m9 ... ...

    Abstract Measurement(s) prevention and control intervention • SARS-CoV-2 non-pharmaceutical interventions Technology Type(s) Survey Sample Characteristic - Location Brazil Machine-accessible metadata file describing the reported data: https://doi.org/10.6084/m9.figshare.13862108
    Keywords Science ; Q
    Language English
    Publishing date 2021-03-01T00:00:00Z
    Publisher Nature Portfolio
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  4. Article ; Online: Epidemiology of COVID-19 after Emergence of SARS-CoV-2 Gamma Variant, Brazilian Amazon, 2020–2021

    Vanessa C. Nicolete / Priscila T. Rodrigues / Anderson R.J. Fernandes / Rodrigo M. Corder / Juliana Tonini / Lewis F. Buss / Flávia C. Sales / Nuno R. Faria / Ester C. Sabino / Marcia C. Castro / Marcelo U. Ferreira

    Emerging Infectious Diseases, Vol 28, Iss 3, Pp 709-

    2022  Volume 712

    Abstract: The severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Gamma variant has been hypothesized to cause more severe illness than previous variants, especially in children. Successive SARS-CoV-2 IgG serosurveys in the Brazilian Amazon showed that ... ...

    Abstract The severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Gamma variant has been hypothesized to cause more severe illness than previous variants, especially in children. Successive SARS-CoV-2 IgG serosurveys in the Brazilian Amazon showed that age-specific attack rates and proportions of symptomatic SARS-CoV-2 infections were similar before and after Gamma variant emergence.
    Keywords COVID-19 ; 2019 novel coronavirus disease ; coronavirus disease ; severe acute respiratory syndrome coronavirus 2 ; SARS-CoV-2 ; viruses ; Medicine ; R ; Infectious and parasitic diseases ; RC109-216
    Language English
    Publishing date 2022-03-01T00:00:00Z
    Publisher Centers for Disease Control and Prevention
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  5. Article ; Online: Phylodynamic assessment of intervention strategies for the West African Ebola virus outbreak

    Simon Dellicour / Guy Baele / Gytis Dudas / Nuno R. Faria / Oliver G. Pybus / Marc A. Suchard / Andrew Rambaut / Philippe Lemey

    Nature Communications, Vol 9, Iss 1, Pp 1-

    2018  Volume 9

    Abstract: During the last Ebola virus outbreak in West Africa, a large amount of viral genomic data was obtained. Here, Dellicour et al. use phylodynamic approaches to assess effect of intervention strategies such as border closures. ...

    Abstract During the last Ebola virus outbreak in West Africa, a large amount of viral genomic data was obtained. Here, Dellicour et al. use phylodynamic approaches to assess effect of intervention strategies such as border closures.
    Keywords Science ; Q
    Language English
    Publishing date 2018-06-01T00:00:00Z
    Publisher Nature Portfolio
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  6. Article ; Online: Phylodynamic assessment of intervention strategies for the West African Ebola virus outbreak

    Simon Dellicour / Guy Baele / Gytis Dudas / Nuno R. Faria / Oliver G. Pybus / Marc A. Suchard / Andrew Rambaut / Philippe Lemey

    Nature Communications, Vol 9, Iss 1, Pp 1-

    2018  Volume 9

    Abstract: During the last Ebola virus outbreak in West Africa, a large amount of viral genomic data was obtained. Here, Dellicour et al. use phylodynamic approaches to assess effect of intervention strategies such as border closures. ...

    Abstract During the last Ebola virus outbreak in West Africa, a large amount of viral genomic data was obtained. Here, Dellicour et al. use phylodynamic approaches to assess effect of intervention strategies such as border closures.
    Keywords Science ; Q
    Language English
    Publishing date 2018-06-01T00:00:00Z
    Publisher Nature Publishing Group
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  7. Article ; Online: Mapping environmental suitability of Haemagogus and Sabethes spp. mosquitoes to understand sylvatic transmission risk of yellow fever virus in Brazil.

    Sabrina L Li / André L Acosta / Sarah C Hill / Oliver J Brady / Marco A B de Almeida / Jader da C Cardoso / Arran Hamlet / Luis F Mucci / Juliana Telles de Deus / Felipe C M Iani / Neil S Alexander / G R William Wint / Oliver G Pybus / Moritz U G Kraemer / Nuno R Faria / Jane P Messina

    PLoS Neglected Tropical Diseases, Vol 16, Iss 1, p e

    2022  Volume 0010019

    Abstract: Background Yellow fever (YF) is an arboviral disease which is endemic to Brazil due to a sylvatic transmission cycle maintained by infected mosquito vectors, non-human primate (NHP) hosts, and humans. Despite the existence of an effective vaccine, recent ...

    Abstract Background Yellow fever (YF) is an arboviral disease which is endemic to Brazil due to a sylvatic transmission cycle maintained by infected mosquito vectors, non-human primate (NHP) hosts, and humans. Despite the existence of an effective vaccine, recent sporadic YF epidemics have underscored concerns about sylvatic vector surveillance, as very little is known about their spatial distribution. Here, we model and map the environmental suitability of YF's main vectors in Brazil, Haemagogus spp. and Sabethes spp., and use human population and NHP data to identify locations prone to transmission and spillover risk. Methodology/principal findings We compiled a comprehensive set of occurrence records on Hg. janthinomys, Hg. leucocelaenus, and Sabethes spp. from 1991-2019 using primary and secondary data sources. Linking these data with selected environmental and land-cover variables, we adopted a stacked regression ensemble modelling approach (elastic-net regularized GLM, extreme gradient boosted regression trees, and random forest) to predict the environmental suitability of these species across Brazil at a 1 km x 1 km resolution. We show that while suitability for each species varies spatially, high suitability for all species was predicted in the Southeastern region where recent outbreaks have occurred. By integrating data on NHP host reservoirs and human populations, our risk maps further highlight municipalities within the region that are prone to transmission and spillover. Conclusions/significance Our maps of sylvatic vector suitability can help elucidate potential locations of sylvatic reservoirs and be used as a tool to help mitigate risk of future YF outbreaks and assist in vector surveillance. Furthermore, at-risk regions identified from our work could help disease control and elucidate gaps in vaccination coverage and NHP host surveillance.
    Keywords Arctic medicine. Tropical medicine ; RC955-962 ; Public aspects of medicine ; RA1-1270
    Subject code 333
    Language English
    Publishing date 2022-01-01T00:00:00Z
    Publisher Public Library of Science (PLoS)
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  8. Article ; Online: The effect of human mobility and control measures on the COVID-19 epidemic in China

    Moritz U.G. Kraemer / Chia-Hung Yang / Bernardo Gutierrez / Chieh-Hsi Wu / Brennan Klein / David M. Pigott / Louis du Plessis / Nuno R Faria / Ruoran Li / William P. Hanage / John S Brownstein / Maylis Layan / Alessandro Vespignani / Huaiyu Tian / Christopher Dye / Simon Cauchemez / Oliver Pybus / Samuel V Scarpino

    Abstract: The ongoing COVID-19 outbreak has expanded rapidly throughout China. Major behavioral, clinical, and state interventions are underway currently to mitigate the epidemic and prevent the persistence of the virus in human populations in China and worldwide. ...

    Abstract The ongoing COVID-19 outbreak has expanded rapidly throughout China. Major behavioral, clinical, and state interventions are underway currently to mitigate the epidemic and prevent the persistence of the virus in human populations in China and worldwide. It remains unclear how these unprecedented interventions, including travel restrictions, have affected COVID-19 spread in China. We use real-time mobility data from Wuhan and detailed case data including travel history to elucidate the role of case importation on transmission in cities across China and ascertain the impact of control measures. Early on, the spatial distribution of COVID-19 cases in China was well explained by human mobility data. Following the implementation of control measures, this correlation dropped and growth rates became negative in most locations, although shifts in the demographics of reported cases are still indicative of local chains of transmission outside Wuhan. This study shows that the drastic control measures implemented in China have substantially mitigated the spread of COVID-19.
    Keywords covid19
    Publisher medrxiv
    Document type Article ; Online
    DOI 10.1101/2020.03.02.20026708
    Database COVID19

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  9. Book ; Online: Code for

    Moritz U.G. Kraemer / Chia-Hung Yang / Bernardo Gutierrez / Chieh-Hsi Wu / Brennan Klein / David Pigott / open COVID-19 data working group / Louis du Plessis / Nuno R. Faria / Ruoran Li / William P. Hanage / John S. Brownstein / Maylis Layan / Alessandro Vespignani / Huaiyu Tian / Christopher Dye / Oliver G. Pybus / Samuel V. Scarpino

    The effect of human mobility and control measures on the COVID-19 epidemic in China

    2020  

    Abstract: Final version of code and data used in the manuscript, "The effect of human mobility and control measures on the COVID-19 epidemic in China." ...

    Abstract Final version of code and data used in the manuscript, "The effect of human mobility and control measures on the COVID-19 epidemic in China."
    Keywords covid19
    Publishing date 2020-03-18
    Publishing country eu
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  10. Article ; Online: Higher risk of death from COVID-19 in low-income and non-White populations of São Paulo, Brazil

    Chieh-hsi Wu / Sabrina L Li / Rafael H M Pereira / Carlos A Prete Jr / Alexander E Zarebski / Lucas Emanuel / Pedro J H Alves / Pedro S Peixoto / Carlos K V Braga / Andreza Aruska de Souza Santos / William M de Souza / Rogerio J Barbosa / Lewis F Buss / Alfredo Mendrone / Cesar de Almeida-Neto / Suzete C Ferreira / Nanci A Salles / Izabel Marcilio / Nelson Gouveia /
    Vitor H Nascimento / Ester C Sabino / Nuno R Faria / Jane P Messina

    BMJ Global Health, Vol 6, Iss

    2021  Volume 4

    Abstract: Introduction Little evidence exists on the differential health effects of COVID-19 on disadvantaged population groups. Here we characterise the differential risk of hospitalisation and death in São Paulo state, Brazil, and show how vulnerability to COVID- ...

    Abstract Introduction Little evidence exists on the differential health effects of COVID-19 on disadvantaged population groups. Here we characterise the differential risk of hospitalisation and death in São Paulo state, Brazil, and show how vulnerability to COVID-19 is shaped by socioeconomic inequalities.Methods We conducted a cross-sectional study using hospitalised severe acute respiratory infections notified from March to August 2020 in the Sistema de Monitoramento Inteligente de São Paulo database. We examined the risk of hospitalisation and death by race and socioeconomic status using multiple data sets for individual-level and spatiotemporal analyses. We explained these inequalities according to differences in daily mobility from mobile phone data, teleworking behaviour and comorbidities.Results Throughout the study period, patients living in the 40% poorest areas were more likely to die when compared with patients living in the 5% wealthiest areas (OR: 1.60, 95% CI 1.48 to 1.74) and were more likely to be hospitalised between April and July 2020 (OR: 1.08, 95% CI 1.04 to 1.12). Black and Pardo individuals were more likely to be hospitalised when compared with White individuals (OR: 1.41, 95% CI 1.37 to 1.46; OR: 1.26, 95% CI 1.23 to 1.28, respectively), and were more likely to die (OR: 1.13, 95% CI 1.07 to 1.19; 1.07, 95% CI 1.04 to 1.10, respectively) between April and July 2020. Once hospitalised, patients treated in public hospitals were more likely to die than patients in private hospitals (OR: 1.40%, 95% CI 1.34% to 1.46%). Black individuals and those with low education attainment were more likely to have one or more comorbidities, respectively (OR: 1.29, 95% CI 1.19 to 1.39; 1.36, 95% CI 1.27 to 1.45).Conclusions Low-income and Black and Pardo communities are more likely to die with COVID-19. This is associated with differential access to quality healthcare, ability to self-isolate and the higher prevalence of comorbidities.
    Keywords Medicine (General) ; R5-920 ; Infectious and parasitic diseases ; RC109-216
    Subject code 610
    Language English
    Publishing date 2021-04-01T00:00:00Z
    Publisher BMJ Publishing Group
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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