Hamiltonian Monte Carlo sampling to estimate past population dynamics using the skygrid coalescent model in a Bayesian phylogenetics framework

por Baele, Guy, Gill, Mandev S., Lemey, Philippe, Suchard, Marc A.
Publicado 2020

Online Bayesian Phylodynamic Inference in BEAST with Application to Epidemic Reconstruction

por Gill, Mandev S, Lemey, Philippe, Suchard, Marc A, Rambaut, Andrew, Baele, Guy
Publicado 2020

Markov-Modulated Continuous-Time Markov Chains to Identify Site- and Branch-Specific Evolutionary Variation in BEAST

por Baele, Guy, Gill, Mandev S, Bastide, Paul, Lemey, Philippe, Suchard, Marc A
Publicado 2020

On the Use of Phylogeographic Inference to Infer the Dispersal History of Rabies Virus: A Review Study

por Nahata, Kanika D., Bollen, Nena, Gill, Mandev S., Layan, Maylis, Bourhy, Hervé, Dellicour, Simon, Baele, Guy
Publicado 2021

Comparative Epidemiology of Rabbit Haemorrhagic Disease Virus Strains from Viral Sequence Data

por Pacioni, Carlo, Hall, Robyn N., Strive, Tanja, Ramsey, David S. L., Gill, Mandev S., Vaughan, Timothy G.
Publicado 2022

Relax, Keep Walking — A Practical Guide to Continuous Phylogeographic Inference with BEAST

por Dellicour, Simon, Gill, Mandev S, Faria, Nuno R, Rambaut, Andrew, Pybus, Oliver G, Suchard, Marc A, Lemey, Philippe
Publicado 2021

Dispersal dynamics of SARS-CoV-2 lineages during the first epidemic wave in New York City

por Dellicour, Simon, Hong, Samuel L., Vrancken, Bram, Chaillon, Antoine, Gill, Mandev S., Maurano, Matthew T., Ramaswami, Sitharam, Zappile, Paul, Marier, Christian, Harkins, Gordon W., Baele, Guy, Duerr, Ralf, Heguy, Adriana
Publicado 2021

Transmission dynamics of re-emerging rabies in domestic dogs of rural China

por Tian, Huaiyu, Feng, Yun, Vrancken, Bram, Cazelles, Bernard, Tan, Hua, Gill, Mandev S., Yang, Qiqi, Li, Yidan, Yang, Weihong, Zhang, Yuzhen, Zhang, Yunzhi, Lemey, Philippe, Pybus, Oliver G., Stenseth, Nils Chr., Zhang, Hailin, Dellicour, Simon
Publicado 2018

Rivers and landscape ecology of a plant virus, Rice yellow mottle virus along the Niger Valley

por Issaka, Souley, Traoré, Oumar, Longué, Régis Dimitri Skopé, Pinel-Galzi, Agnès, Gill, Mandev S, Dellicour, Simon, Bastide, Paul, Guindon, Stéphane, Hébrard, Eugénie, Dugué, Marie-Jo, Séré, Yacouba, Semballa, Silla, Aké, Séverin, Lemey, Philippe, Fargette, Denis
Publicado 2021

SARS-CoV-2 European resurgence foretold: interplay of introductions and persistence by leveraging genomic and mobility data

por Lemey, Philippe, Ruktanonchai, Nick, Hong, Samuel L., Colizza, Vittoria, Poletto, Chiara, Van den Broeck, Frederik, Gill, Mandev S., Ji, Xiang, Levasseur, Anthony, Sadilek, Adam, Lai, Shengjie, Tatem, Andrew J., Baele, Guy, Suchard, Marc A., Dellicour, Simon
Publicado 2021

Epidemiological hypothesis testing using a phylogeographic and phylodynamic framework

por Dellicour, Simon, Lequime, Sebastian, Vrancken, Bram, Gill, Mandev S., Bastide, Paul, Gangavarapu, Karthik, Matteson, Nathaniel L., Tan, Yi, du Plessis, Louis, Fisher, Alexander A., Nelson, Martha I., Gilbert, Marius, Suchard, Marc A., Andersen, Kristian G., Grubaugh, Nathan D., Pybus, Oliver G., Lemey, Philippe
Publicado 2020

A Phylodynamic Workflow to Rapidly Gain Insights into the Dispersal History and Dynamics of SARS-CoV-2 Lineages

por Dellicour, Simon, Durkin, Keith, Hong, Samuel L, Vanmechelen, Bert, Martí-Carreras, Joan, Gill, Mandev S, Meex, Cécile, Bontems, Sébastien, André, Emmanuel, Gilbert, Marius, Walker, Conor, Maio, Nicola De, Faria, Nuno R, Hadfield, James, Hayette, Marie-Pierre, Bours, Vincent, Wawina-Bokalanga, Tony, Artesi, Maria, Baele, Guy, Maes, Piet
Publicado 2020

Dynamics of Eastern equine encephalitis virus during the 2019 outbreak in the Northeast United States

por Hill, Verity, Koch, Robert T., Bialosuknia, Sean M., Ngo, Kiet, Zink, Steven D., Koetzner, Cheri A., Maffei, Joseph G., Dupuis, Alan P., Backenson, P. Bryon, Oliver, JoAnne, Bransfield, Angela B., Misencik, Michael J., Petruff, Tanya A., Shepard, John J., Warren, Joshua L., Gill, Mandev S., Baele, Guy, Vogels, Chantal B.F., Gallagher, Glen, Burns, Paul, Hentoff, Aaron, Smole, Sandra, Brown, Catherine, Osborne, Matthew, Kramer, Laura D., Armstrong, Philip M., Ciota, Alexander T., Grubaugh, Nathan D.
Publicado 2023

Evolution and epidemic spread of SARS-CoV-2 in Brazil

por Candido, Darlan S., Claro, Ingra M., de Jesus, Jaqueline G., Souza, William M., Moreira, Filipe R. R., Dellicour, Simon, Mellan, Thomas A., du Plessis, Louis, Pereira, Rafael H. M., Sales, Flavia C. S., Manuli, Erika R., Thézé, Julien, Almeida, Luiz, Menezes, Mariane T., Voloch, Carolina M., Fumagalli, Marcilio J., Coletti, Thaís M., da Silva, Camila A. M., Ramundo, Mariana S., Amorim, Mariene R., Hoeltgebaum, Henrique H., Mishra, Swapnil, Gill, Mandev S., Carvalho, Luiz M., Buss, Lewis F., Prete, Carlos A., Ashworth, Jordan, Nakaya, Helder I., Peixoto, Pedro S., Brady, Oliver J., Nicholls, Samuel M., Tanuri, Amilcar, Rossi, Átila D., Braga, Carlos K.V., Gerber, Alexandra L., de C. Guimarães, Ana Paula, Gaburo, Nelson, Alencar, Cecila Salete, Ferreira, Alessandro C.S., Lima, Cristiano X., Levi, José Eduardo, Granato, Celso, Ferreira, Giulia M., Francisco, Ronaldo S., Granja, Fabiana, Garcia, Marcia T., Moretti, Maria Luiza, Perroud, Mauricio W., Castiñeiras, Terezinha M. P. P., Lazari, Carolina S., Hill, Sarah C., de Souza Santos, Andreza Aruska, Simeoni, Camila L., Forato, Julia, Sposito, Andrei C., Schreiber, Angelica Z., Santos, Magnun N. N., de Sá, Camila Zolini, Souza, Renan P., Resende-Moreira, Luciana C., Teixeira, Mauro M., Hubner, Josy, Leme, Patricia A. F., Moreira, Rennan G, Nogueira, Maurício L., Ferguson, Neil M, Costa, Silvia F., Proenca-Modena, José Luiz, Vasconcelos, Ana Tereza R., Bhatt, Samir, Lemey, Philippe, Wu, Chieh-Hsi, Rambaut, Andrew, Loman, Nick J., Aguiar, Renato S., Pybus, Oliver G., Sabino, Ester C., Faria, Nuno Rodrigues
Publicado 2020