Results 41 to 50 of about 2,682 (195)
Eight challenges in phylodynamic inference
Epidemics, 2015 Epidemics ...Frost, Simon D.W., Pybus, Oliver G., Gog, Julia R., Viboud, Cecile, Bonhoeffer, Sebastian, Bedford, Trevor +5 moreopenaire +5 more sourcesCharacterizing the Countrywide Epidemic Spread of Influenza A(H1N1)pdm09 Virus in Kenya between 2009 and 2018
Viruses, 2021 The spatiotemporal patterns of spread of influenza A(H1N1)pdm09 viruses on a countrywide scale are unclear in many tropical/subtropical regions mainly because spatiotemporally representative sequence data are lacking. We isolated, sequenced, and analyzed D. Collins Owuor, Zaydah R. de Laurent, Gilbert K. Kikwai, Lillian M. Mayieka, Melvin Ochieng, Nicola F. Müller, Nancy A. Otieno, Gideon O. Emukule, Elizabeth A. Hunsperger, Rebecca Garten, John R. Barnes, Sandra S. Chaves, D. James Nokes, Charles N. Agoti +13 moredoaj +1 more sourceDiverse Large HIV-1 Non-subtype B Clusters Are Spreading Among Men Who Have Sex With Men in Spain
Frontiers in Microbiology, 2019 In Western Europe, the HIV-1 epidemic among men who have sex with men (MSM) is dominated by subtype B. However, recently, other genetic forms have been reported to circulate in this population, as evidenced by their grouping in clusters predominantly ...Elena Delgado, Sonia Benito, Vanessa Montero, María Teresa Cuevas, Aurora Fernández-García, Aurora Fernández-García, Mónica Sánchez-Martínez, Elena García-Bodas, Francisco Díez-Fuertes, Horacio Gil, Horacio Gil, Javier Cañada, Cristina Carrera, Jesús Martínez-López, Marcos Sintes, Lucía Pérez-Álvarez, Michael M. Thomson, The Spanish Group for the Study of New HIV Diagnoses, Josefa Muñoz, María Carmen Nieto, María Zuriñe Zubero, Silvia Hernáez-Crespo, Luis Elorduy Otazua, Leyre López Soria, Koldo Agirrebengoa, María José López de Goicoechea, José Mayo, Gustavo Cilla, Julio Arrizabalaga, José Antonio Iribarren, María Jesús Bustinduy, María Julia Echevarría, María Jesús Lezaun, José Joaquín Portu, Carmen Gómez-González, Ana Mariño, Patricia Ordóñez, Hortensia Álvarez, Nieves Valcarce, Ángeles Cañizares, María Ángeles Castro, María Amparo Coira, José López-Álvarez, Ramón Rabunal, Juan García-Costa, Ricardo Fernández-Rodríguez, Raúl Rodríguez-Pérez, Jorge Guitián, Antonio Ocampo, Celia Miralles, Sonia Pérez-Castro, Matilde Trigo, Julio Diz-Arén, María Ángeles Pallarés, Carmen Ezpeleta Baquedano, Aitziber Aguinaga, María Gracia Ruiz de Alda, Jorge del Romero, Carmen Rodríguez, Mar Vera, Óscar Ayerdi, María Isabel García-Arata, Santiago Prieto-Menchero, Esther Culebras, Iciar Rodríguez-Avial, Raquel Téllez, Miguel Górgolas, Manuel Fernández-Guerrero, Olalla Calabia, Rosa García-Delgado, Sara María Quevedo, Lucía Puente, Manuel Álamo, Alfonso Alfange, Sara de la Fuente, Carmen Hinojosa, Carlos Dueñas, Begoña Monteagudo, Edita Sánchez, Carmen Ramos Sánchez, Pablo Bachiller, Helmuth Guillén, Teresa Martínez-Domínguez, Rosa Martínez-González, José Ramón Blanco, Miriam Blasco, Ana María Martínez-Sapiña, Diego Ortega Larrea, César Gómez-Hernando, José Largo-Pau, Fernando Buñuel, Ana Infante +91 moredoaj +1 more sourceAn efficient Bayesian inference framework for coalescent-based nonparametric phylodynamics [PDF]
, 2015 MotivationThe field of phylodynamics focuses on the problem of reconstructing population size dynamics over time using current genetic samples taken from the population of interest. This technique has been extensively used in many areas of biology but is Shahbaba, Babak, Palacios, Julia A, Karcher, Michael, Minin, Volodymyr, Lan, Shiwei, Palacios, Julia, Minin, Vladimir N +6 morecore +1 more sourceEmerging Concepts of Data Integration in Pathogen Phylodynamics [PDF]
Systematic Biology, 2016 Phylodynamics has become an increasingly popular statistical framework to extract evolutionary and epidemiological information from pathogen genomes. By harnessing such information, epidemiologists aim to shed light on the spatio-temporal patterns of spread and to test hypotheses about the underlying interaction of evolutionary and ecological dynamics ...Baele, Guy, Suchard, Marc A., Rambaut, Andrew, Lemey, Philippe +3 moreopenaire +7 more sourcesPhylogenetic Reconstructions Reveal the Circulation of a Novel Dengue Virus-1V Clade and the Persistence of a Dengue Virus-2 III Genotype in Northeast Brazil
Viruses, 2023 Dengue fever is among the most significant public health concerns in Brazil. To date, the highest number of Dengue notifications in the Americas has been reported in Brazil, with cases accounting for a total number of 3,418,796 reported cases as of mid ...Hegger Fritsch, Keldenn Moreno, Italo Andrade Barbosa Lima, Cleiton Silva Santos, Bernardo Gratival Gouvea Costa, Breno Lima de Almeida, Ronald Alves dos Santos, Marcos Vinicius Lima de Oliveira Francisco, Maria Paula Souza Sampaio, Maricelia Maia de Lima, Felicidade Mota Pereira, Vagner Fonseca, Stephane Tosta, Joilson Xavier, Carla de Oliveira, Talita Adelino, Arabela Leal e Silva de Mello, Tiago Gräf, Luiz Carlos Junior Alcantara, Marta Giovanetti, Isadora Cristina de Siqueira +20 moredoaj +1 more sourcePhylodynamic Inference for Structured Epidemiological Models
PLoS Computational Biology, 2014 Coalescent theory is routinely used to estimate past population dynamics and demographic parameters from genealogies. While early work in coalescent theory only considered simple demographic models, advances in theory have allowed for increasingly complex demographic scenarios to be considered.David A. Rasmussen, Erik M. Volz, Katia Koelle +2 moreopenaire +3 more sourcesWhole genome sequencing reveals local transmission patterns of mycobacterium bovis in sympatric cattle and badger populations [PDF]
, 2012 Whole genome sequencing (WGS) technology holds great promise as a tool for the forensic epidemiology of bacterial pathogens. It is likely to be particularly useful for studying the transmission dynamics of an observed epidemic involving a largely ...O'Hare, Anthony, Stanley McDowell, Mallon Tom, Orton, Richard, Mallon, Tom, Biek, R., O'Hare, A., Robin A. Skuce (116935), Kao, R.R., Skuce, Robin A, Tom Mallon, David Wright, Orton Richard J., Kao, Rowland R., Rowland R Kao, McCormick, Carl, Wright David, Biek Roman, Hannah Trewby (116929), Richard J. Orton (116918), Skuce Robin A., Hannah Trewby, McDowell, S., Kao Rowland R., Kao, Rowland R, Trewby, Hannah, Carl McCormick, Skuce, Robin A., Tom Mallon (116914), McCormick, C., David Wright (116911), Mallon, T., Roman Biek (21981), Roman Biek, Wright, D., McCormick Carl, Richard J Orton, McDowell, Stanley, Trewby Hannah, Orton, Richard J., Anthony O'Hare (116908), O'Hare Anthony, McDowell Stanley, Trewby, H., Robin A Skuce, Wright, David; id_orcid, Biek, Roman, Carl McCormick (116915), Stanley McDowell (116923), Wright, David, Orton, R.J., Rowland R. Kao (116940), Skuce, R.A., Anthony O'Hare +53 morecore +1 more sourceSpatial phylodynamics of HIV-1 epidemic emergence in east Africa
, 2009 DESIGN: We sought to investigate the evolutionary and historical reasons for the different epidemiological patterns of HIV-1 in the early epidemic. In order to characterize the demographic history of HIV-1 subtypes A and D in east Africa, we examined ...Gray, R.H., Sewankambo, N., Ronald H Gray, Maureen M Goodenow, Laeyendecker, O, Wawer, M, Gray, RR, Serwadda, D, Tatem, AJ, Lamers, S, Nelson Sewankambo, Goodenow, M.M., Gray, RH, Quinn, T.C., Goodenow, MM, Susanna Lamers, Laeyendecker, O., Gray, R.R., Salemi, M., Salemi, M, Hou, W, Serwadda, D., Quinn, TC, Tatem, A.J., Wawer, M., Sewankambo, N, Rebecca R Gray, Wei Hou, Oliver Laeyendecker, Thomas C Quinn, Marco Salemi, Maria Wawer, David Serwadda, Hou, W., Andrew J Tatem, Lamers, S. +35 morecore +2 more sources
