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A computational method for the identification of Dengue, Zika and Chikungunya virus species and genotypes

In recent years, an increasing number of outbreaks of Dengue, Chikungunya and Zika viruses have been reported in Asia and the Americas. Monitoring virus genotype diversity is crucial to understand the emergence and spread of outbreaks, both aspects that are vital to develop effective prevention and...

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Detalles Bibliográficos
Autores principales: Fonseca, Vagner, Libin, Pieter J. K., Theys, Kristof, Faria, Nuno R., Nunes, Marcio R. T., Restovic, Maria I., Freire, Murilo, Giovanetti, Marta, Cuypers, Lize, Nowé, Ann, Abecasis, Ana, Deforche, Koen, Santiago, Gilberto A., de Siqueira, Isadora C., San, Emmanuel J., Machado, Kaliane C. B., Azevedo, Vasco, Filippis, Ana Maria Bispo-de, da Cunha, Rivaldo Venâncio, Pybus, Oliver G., Vandamme, Anne-Mieke, Alcantara, Luiz C. J., de Oliveira, Tulio
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6527240/
https://www.ncbi.nlm.nih.gov/pubmed/31067235
http://dx.doi.org/10.1371/journal.pntd.0007231
Descripción
Sumario:In recent years, an increasing number of outbreaks of Dengue, Chikungunya and Zika viruses have been reported in Asia and the Americas. Monitoring virus genotype diversity is crucial to understand the emergence and spread of outbreaks, both aspects that are vital to develop effective prevention and treatment strategies. Hence, we developed an efficient method to classify virus sequences with respect to their species and sub-species (i.e. serotype and/or genotype). This tool provides an easy-to-use software implementation of this new method and was validated on a large dataset assessing the classification performance with respect to whole-genome sequences and partial-genome sequences. Available online: http://krisp.org.za/tools.php.