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All Outputs (30)

Trade-offs between individual and ensemble forecasts of an emerging infectious disease (2021)
Journal Article
Oidtman, R. J., Omodei, E., Kraemer, M. U. G., Casteneda-Orjuela, C. A., Cruz-Rivera, E., Misnaza-Castrillon, S., Cifuentes, M. P., Rincon, L. E., Canon, V., de Alarcon, P., Espana, G., Huber, J. H., Hill, S. C., Barker, C. M., Johansson, M. A., Manore, C. A., Reiner, R. C., Rodriguez-Barraquer, I., Siraj, A. S., Frias-Martinez, E., …Perkins, A. (2021). Trade-offs between individual and ensemble forecasts of an emerging infectious disease. Nature Communications, 12, Article 5379. https://doi.org/10.1101/2021.02.25.21252363

SARS-CoV-2 genomic sequencing for public health goals (2021)
Report
Barnadas, C., Cognat, S., Evans, R., Gordon, B. A., Grabovac, V., Grant, R., Inbanathan, F., Konings, F., Nahapetyan, K., Marklewitz, M., Medina, M.-J., Medlicott, K. O., Mulders, M., Perkins, M. D., Samaan, M., Schmoll, O., Van Kerkhove, M., von Eije, K., Zwetyenga, J., Benschop, K., …Volz, E. (2021). SARS-CoV-2 genomic sequencing for public health goals. World Health Organization

Diagnostic testing for SARS-CoV-2 (2020)
Report
Barakat, A., Barnadas, C., Bertagnolio, S., Brown, C., Carter, L., Cognat, S., Cunningham, J., Grabovac, V., Inbanathan, F., Kojima, K., Leite, J., Marklewitz, M., Mendez-Rico, J., Nahapetyan, K., Oxenford, C., Pavlin, B., Perkins, M., Perrocheau, A., Rovira, J., Van Kerkhove, M., …Gao, G. (2020). Diagnostic testing for SARS-CoV-2. World Health Organization

Genomic Surveillance of Yellow Fever Virus Epizootic in São Paulo, Brazil, 2016 – 2018 (2020)
Journal Article
Lauring, A. S., Hill, S. C., de Souza, R., Thézé, J., Claro, I., Aguiar, R. S., Abade, L., Santos, F. C. P., Cunha, M. S., Nogueira, J. S., Salles, F. C. S., Rocco, I. M., Maeda, A. Y., Vasami, F. G. S., du Plessis, L., Silveira, P. P., de Jesus, J. G., Quick, J., Fernandes, N. C. C. A., Guerra, J. M., …Faria, N. R. (2020). Genomic Surveillance of Yellow Fever Virus Epizootic in São Paulo, Brazil, 2016 – 2018. PLoS Pathogens, 16(8), e1008699. https://doi.org/10.1371/journal.ppat.1008699

São Paulo, a densely inhabited state in southeast Brazil that contains the fourth most populated city in the world, recently experienced its largest yellow fever virus (YFV) outbreak in decades. YFV does not normally circulate extensively in São Paul... Read More about Genomic Surveillance of Yellow Fever Virus Epizootic in São Paulo, Brazil, 2016 – 2018.

Evolution and epidemic spread of SARS-CoV-2 in Brazil (2020)
Journal Article
Candido, D. S., Claro, I. M., de Jesus, J. G., Souza, W. M., Moreira, F. R. R., Dellicour, S., Mellan, T. A., du Plessis, L., Pereira, R. H. M., Sales, F. C. S., Manuli, E. R., Thézé, J., Almeida, L., Menezes, M. T., Voloch, C. M., Fumagalli, M. J., Coletti, T. M., da Silva, C. A. M., Ramundo, M. S., Amorim, M. R., …Faria, N. (2020). Evolution and epidemic spread of SARS-CoV-2 in Brazil. Science, eabd2161. https://doi.org/10.1126/science.abd2161

Brazil currently has one of the fastest growing SARS-CoV-2 epidemics in the world. Owing to limited available data, assessments of the impact of non-pharmaceutical interventions (NPIs) on virus spread remain challenging. Using a mobility-driven trans... Read More about Evolution and epidemic spread of SARS-CoV-2 in Brazil.

Genomic and epidemiological monitoring of yellow fever virus transmission potential (2018)
Journal Article
Faria, N. R., Kraemer, M. U. G., Hill, S. C., Goes de Jesus, J., Aguiar, R. S., Iani, F. C. M., Xavier, J., Quick, J., du Plessis, L., Dellicour, S., Thézé, J., Carvalho, R. D. O., Baele, G., Wu, C.-H., Silveira, P. P., Arruda, M. B., Pereira, M. A., Pereira, G. C., Lourenço, J., Obolski, U., …Pybus, O. G. (2018). Genomic and epidemiological monitoring of yellow fever virus transmission potential. Science, 361(6405), 894-899. https://doi.org/10.1126/science.aat7115

The yellow fever virus (YFV) epidemic in Brazil is the largest in decades. The recent discovery of YFV in Brazilian Aedes species mosquitos highlights a need to monitor the risk of reestablishment of urban YFV transmission in the Americas. We use a s... Read More about Genomic and epidemiological monitoring of yellow fever virus transmission potential.

Establishment and cryptic transmission of Zika virus in Brazil and the Americas (2017)
Journal Article
Faria, N. R., Quick, J., Claro, I., Thézé, J., de Jesus, J. G., Giovanetti, M., Kraemer, M. U. G., Hill, S. C., Black, A., da Costa, A. C., Franco, L. C., Silva, S. P., Wu, C.-H., Raghwani, J., Cauchemez, S., du Plessis, L., Verotti, M. P., de Oliveira, W. K., Carmo, E. H., Coelho, G. E., …Pybus, O. G. (2017). Establishment and cryptic transmission of Zika virus in Brazil and the Americas. Nature, 546(7658), 406-410. https://doi.org/10.1038/nature22401

Transmission of Zika virus (ZIKV) in the Americas was first confirmed in May 2015 in northeast Brazil1. Brazil has had the highest number of reported ZIKV cases worldwide (more than 200,000 by 24 December 20162) and the most cases associated with mic... Read More about Establishment and cryptic transmission of Zika virus in Brazil and the Americas.

The Evolution, Spread and Global Threat of H6Nx Avian Influenza Viruses
Journal Article
Everest, H., Hill, S., Daines, R., Sealy, J., James, J., Hansen, R., & Iqbal, M. (in press). The Evolution, Spread and Global Threat of H6Nx Avian Influenza Viruses. Viruses, 12(6), 673. https://doi.org/10.3390/v12060673

Avian influenza viruses of the subtype H6Nx are being detected globally with increasing
frequency. Some H6Nx lineages are becoming enzootic in Asian poultry and sporadic incursions into European poultry are occurring more frequently. H6Nx viruses th... Read More about The Evolution, Spread and Global Threat of H6Nx Avian Influenza Viruses.