The Mutational Robustness of Influenza A Virus

por Visher, Elisa, Whitefield, Shawn E., McCrone, John T., Fitzsimmons, William, Lauring, Adam S.
Publicado 2016

Stochastic processes constrain the within and between host evolution of influenza virus

por McCrone, John T, Woods, Robert J, Martin, Emily T, Malosh, Ryan E, Monto, Arnold S, Lauring, Adam S
Publicado 2018

Vaccination has minimal impact on the intrahost diversity of H3N2 influenza viruses

por Debbink, Kari, McCrone, John T., Petrie, Joshua G., Truscon, Rachel, Johnson, Emileigh, Mantlo, Emily K., Monto, Arnold S., Lauring, Adam S.
Publicado 2017

Early underdetected dissemination across countries followed by extensive local transmission propelled the 2022 mpox epidemic

por Paredes, Miguel I., Ahmed, Nashwa, Figgins, Marlin, Colizza, Vittoria, Lemey, Philippe, McCrone, John T., Müller, Nicola, Tran-Kiem, Cécile, Bedford, Trevor
Publicado 2023

A dynamic nomenclature proposal for SARS-CoV-2 lineages to assist genomic epidemiology

por Rambaut, Andrew, Holmes, Edward C., O’Toole, Áine, Hill, Verity, McCrone, John T., Ruis, Christopher, du Plessis, Louis, Pybus, Oliver G.
Publicado 2020

Addendum: A dynamic nomenclature proposal for SARS-CoV-2 lineages to assist genomic epidemiology

por Rambaut, Andrew, Holmes, Edward C., O’Toole, Áine, Hill, Verity, McCrone, John T., Ruis, Christopher, du Plessis, Louis, Pybus, Oliver G.
Publicado 2021

A speed–fidelity trade-off determines the mutation rate and virulence of an RNA virus

por Fitzsimmons, William J., Woods, Robert J., McCrone, John T., Woodman, Andrew, Arnold, Jamie J., Yennawar, Madhumita, Evans, Richard, Cameron, Craig E., Lauring, Adam S.
Publicado 2018

Computational and Empirical Studies Predict Mycobacterium tuberculosis-Specific T Cells as a Biomarker for Infection Outcome

por Marino, Simeone, Gideon, Hannah P., Gong, Chang, Mankad, Shawn, McCrone, John T., Lin, Philana Ling, Linderman, Jennifer J., Flynn, JoAnne L., Kirschner, Denise E.
Publicado 2016

Accommodating individual travel history, global mobility, and unsampled diversity in phylogeography: a SARS-CoV-2 case study.

por Lemey, Philippe, Hong, Samuel, Hill, Verity, Baele, Guy, Poletto, Chiara, Colizza, Vittoria, O’Toole, Áine, McCrone, John T., Andersen, Kristian G., Worobey, Michael, Nelson, Martha I., Rambaut, Andrew, Suchard, Marc A.
Publicado 2020

Genomic Epidemiology of Early SARS-CoV-2 Transmission Dynamics, Gujarat, India

por Raghwani, Jayna, du Plessis, Louis, McCrone, John T., Hill, Sarah C., Parag, Kris V., Thézé, Julien, Kumar, Dinesh, Puvar, Apurva, Pandit, Ramesh, Pybus, Oliver G., Fournié, Guillaume, Joshi, Madhvi, Joshi, Chaitanya
Publicado 2022

Accommodating individual travel history and unsampled diversity in Bayesian phylogeographic inference of SARS-CoV-2

por Lemey, Philippe, Hong, Samuel L., Hill, Verity, Baele, Guy, Poletto, Chiara, Colizza, Vittoria, O’Toole, Áine, McCrone, John T., Andersen, Kristian G., Worobey, Michael, Nelson, Martha I., Rambaut, Andrew, Suchard, Marc A.
Publicado 2020

Assignment of epidemiological lineages in an emerging pandemic using the pangolin tool

por O’Toole, Áine, Scher, Emily, Underwood, Anthony, Jackson, Ben, Hill, Verity, McCrone, John T, Colquhoun, Rachel, Ruis, Chris, Abu-Dahab, Khalil, Taylor, Ben, Yeats, Corin, du Plessis, Louis, Maloney, Daniel, Medd, Nathan, Attwood, Stephen W, Aanensen, David M, Holmes, Edward C, Pybus, Oliver G, Rambaut, Andrew
Publicado 2021

Generation and transmission of interlineage recombinants in the SARS-CoV-2 pandemic

por Jackson, Ben, Boni, Maciej F., Bull, Matthew J., Colleran, Amy, Colquhoun, Rachel M., Darby, Alistair C., Haldenby, Sam, Hill, Verity, Lucaci, Anita, McCrone, John T., Nicholls, Samuel M., O’Toole, Áine, Pacchiarini, Nicole, Poplawski, Radoslaw, Scher, Emily, Todd, Flora, Webster, Hermione J., Whitehead, Mark, Wierzbicki, Claudia, Loman, Nicholas J., Connor, Thomas R., Robertson, David L., Pybus, Oliver G., Rambaut, Andrew
Publicado 2021

Spatiotemporal invasion dynamics of SARS-CoV-2 lineage B.1.1.7 emergence

por Kraemer, Moritz U. G., Hill, Verity, Ruis, Christopher, Dellicour, Simon, Bajaj, Sumali, McCrone, John T., Baele, Guy, Parag, Kris V., Battle, Anya Lindström, Gutierrez, Bernardo, Jackson, Ben, Colquhoun, Rachel, O’Toole, Áine, Klein, Brennan, Vespignani, Alessandro, Volz, Erik, Faria, Nuno R., Aanensen, David M., Loman, Nicholas J., du Plessis, Louis, Cauchemez, Simon, Rambaut, Andrew, Scarpino, Samuel V., Pybus, Oliver G.
Publicado 2021

Evidence for SARS-CoV-2 Delta and Omicron co-infections and recombination

por Bolze, Alexandre, Basler, Tracy, White, Simon, Dei Rossi, Andrew, Wyman, Dana, Dai, Hang, Roychoudhury, Pavitra, Greninger, Alexander L., Hayashibara, Kathleen, Beatty, Mark, Shah, Seema, Stous, Sarah, McCrone, John T., Kil, Eric, Cassens, Tyler, Tsan, Kevin, Nguyen, Jason, Ramirez, Jimmy, Carter, Scotty, Cirulli, Elizabeth T., Schiabor Barrett, Kelly, Washington, Nicole L., Belda-Ferre, Pedro, Jacobs, Sharoni, Sandoval, Efren, Becker, David, Lu, James T., Isaksson, Magnus, Lee, William, Luo, Shishi
Publicado 2022

Establishment and lineage dynamics of the SARS-CoV-2 epidemic in the UK

por du Plessis, Louis, McCrone, John T., Zarebski, Alexander E., Hill, Verity, Ruis, Christopher, Gutierrez, Bernardo, Raghwani, Jayna, Ashworth, Jordan, Colquhoun, Rachel, Connor, Thomas R., Faria, Nuno R., Jackson, Ben, Loman, Nicholas J., O’Toole, Áine, Nicholls, Samuel M., Parag, Kris V., Scher, Emily, Vasylyeva, Tetyana I., Volz, Erik M., Watts, Alexander, Bogoch, Isaac I., Khan, Kamran, Aanensen, David M., Kraemer, Moritz U. G., Rambaut, Andrew, Pybus, Oliver G.
Publicado 2021

Evaluating the Effects of SARS-CoV-2 Spike Mutation D614G on Transmissibility and Pathogenicity

por Volz, Erik, Hill, Verity, McCrone, John T., Price, Anna, Jorgensen, David, O’Toole, Áine, Southgate, Joel, Johnson, Robert, Jackson, Ben, Nascimento, Fabricia F., Rey, Sara M., Nicholls, Samuel M., Colquhoun, Rachel M., da Silva Filipe, Ana, Shepherd, James, Pascall, David J., Shah, Rajiv, Jesudason, Natasha, Li, Kathy, Jarrett, Ruth, Pacchiarini, Nicole, Bull, Matthew, Geidelberg, Lily, Siveroni, Igor, Goodfellow, Ian, Loman, Nicholas J., Pybus, Oliver G., Robertson, David L., Thomson, Emma C., Rambaut, Andrew, Connor, Thomas R.
Publicado 2021

Genomic Epidemiology of SARS-CoV-2 in Guangdong Province, China

por Lu, Jing, du Plessis, Louis, Liu, Zhe, Hill, Verity, Kang, Min, Lin, Huifang, Sun, Jiufeng, François, Sarah, Kraemer, Moritz U.G., Faria, Nuno R., McCrone, John T., Peng, Jinju, Xiong, Qianling, Yuan, Runyu, Zeng, Lilian, Zhou, Pingping, Liang, Chumin, Yi, Lina, Liu, Jun, Xiao, Jianpeng, Hu, Jianxiong, Liu, Tao, Ma, Wenjun, Li, Wei, Su, Juan, Zheng, Huanying, Peng, Bo, Fang, Shisong, Su, Wenzhe, Li, Kuibiao, Sun, Ruilin, Bai, Ru, Tang, Xi, Liang, Minfeng, Quick, Josh, Song, Tie, Rambaut, Andrew, Loman, Nick, Raghwani, Jayna, Pybus, Oliver G., Ke, Changwen
Publicado 2020

Genomic epidemiology of SARS-CoV-2 transmission lineages in Ecuador

por Gutierrez, Bernardo, Márquez, Sully, Prado-Vivar, Belén, Becerra-Wong, Mónica, Guadalupe, Juan José, da Silva Candido, Darlan, Fernandez-Cadena, Juan Carlos, Morey-Leon, Gabriel, Armas-Gonzalez, Rubén, Andrade-Molina, Derly Madeleiny, Bruno, Alfredo, de Mora, Domenica, Olmedo, Maritza, Portugal, Denisse, Gonzalez, Manuel, Orlando, Alberto, Drexler, Jan Felix, Moreira-Soto, Andres, Sander, Anna-Lena, Brünink, Sebastian, Kühne, Arne, Patiño, Leandro, Carrazco-Montalvo, Andrés, Mestanza, Orson, Zurita, Jeannete, Sevillano, Gabriela, du Plessis, Louis, McCrone, John T., Coloma, Josefina, Trueba, Gabriel, Barragán, Verónica, Rojas-Silva, Patricio, Grunauer, Michelle, Kraemer, Moritz U.G., Faria, Nuno R., Escalera-Zamudio, Marina, Pybus, Oliver G., Cárdenas, Paúl
Publicado 2021

Genomic epidemiology of SARS-CoV-2 transmission lineages in Ecuador

por Gutierrez, Bernardo, Márquez, Sully, Prado-Vivar, Belén, Becerra-Wong, Mónica, Guadalupe, Juan José, Candido, Darlan Da Silva, Fernandez-Cadena, Juan Carlos, Morey-Leon, Gabriel, Armas-Gonzalez, Rubén, Andrade-Molina, Derly Madeleiny, Bruno, Alfredo, De Mora, Domenica, Olmedo, Maritza, Portugal, Denisse, Gonzalez, Manuel, Orlando, Alberto, Drexler, Jan Felix, Moreira-Soto, Andres, Sander, Anna-Lena, Brünink, Sebastian, Kühne, Arne, Patiño, Leandro, Carrazco-Montalvo, Andrés, Mestanza, Orson, Zurita, Jeannete, Sevillano, Gabriela, Du Plessis, Louis, McCrone, John T, Coloma, Josefina, Trueba, Gabriel, Barragán, Verónica, Rojas-Silva, Patricio, Grunauer, Michelle, Kraemer, Moritz U G, Faria, Nuno R, Escalera-Zamudio, Marina, Pybus, Oliver G, Cárdenas, Paúl
Publicado 2021