J
John T. McCrone
Researcher at University of Edinburgh
Publications - 47
Citations - 8799
John T. McCrone is an academic researcher from University of Edinburgh. The author has contributed to research in topics: Influenza A virus & Pandemic. The author has an hindex of 24, co-authored 44 publications receiving 4346 citations. Previous affiliations of John T. McCrone include University of Missouri & University of Michigan.
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Journal ArticleDOI
A dynamic nomenclature proposal for SARS-CoV-2 lineages to assist genomic epidemiology.
Andrew Rambaut,Edward C. Holmes,Áine O'Toole,Verity Hill,John T. McCrone,Christopher Ruis,Louis du Plessis,Oliver G. Pybus +7 more
TL;DR: A rational and dynamic virus nomenclature that uses a phylogenetic framework to identify those lineages that contribute most to active spread and is designed to provide a real-time bird’s-eye view of the diversity of the hundreds of thousands of genome sequences collected worldwide.
Journal ArticleDOI
Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil.
Nuno R. Faria,Thomas A. Mellan,Charles Whittaker,Ingra Morales Claro,Darlan da Silva Candido,Darlan da Silva Candido,Swapnil Mishra,Myuki A E Crispim,Flavia C. S. Sales,Iwona Hawryluk,John T. McCrone,Ruben J.G. Hulswit,Lucas A M Franco,Mariana S. Ramundo,Jaqueline Goes de Jesus,Pamela S Andrade,Thais M. Coletti,Giulia M. Ferreira,Camila A. M. Silva,Erika R. Manuli,Rafael Henrique Moraes Pereira,Pedro S. Peixoto,Moritz U. G. Kraemer,Nelson Gaburo,Cecilia da C. Camilo,Henrique Hoeltgebaum,William Marciel de Souza,Esmenia C. Rocha,Leandro Marques de Souza,Mariana C. Pinho,Leonardo José Tadeu de Araújo,Frederico S V Malta,Aline B. de Lima,Joice do P. Silva,Danielle A G Zauli,Alessandro C. S. Ferreira,Ricardo P Schnekenberg,Daniel J Laydon,Patrick G T Walker,Hannah M. Schlüter,Ana L. P. dos Santos,Maria S. Vidal,Valentina S. Del Caro,Rosinaldo M. F. Filho,Helem M. dos Santos,Renato Santana Aguiar,José Luiz Proença-Módena,Bruce Walker Nelson,James A. Hay,Melodie Monod,Xenia Miscouridou,Helen Coupland,Raphael Sonabend,Michaela A. C. Vollmer,Axel Gandy,Carlos A. Prete,Vitor H. Nascimento,Marc A. Suchard,Thomas A. Bowden,Sergei L Kosakovsky Pond,Chieh-Hsi Wu,Oliver Ratmann,Neil M. Ferguson,Christopher Dye,Nicholas J. Loman,Philippe Lemey,Andrew Rambaut,Nelson Abrahim Fraiji,Maria Perpétuo Socorro Sampaio Carvalho,Oliver G. Pybus,Oliver G. Pybus,Seth Flaxman,Samir Bhatt,Samir Bhatt,Ester Cerdeira Sabino +74 more
TL;DR: In this article, the authors used a two-category dynamical model that integrates genomic and mortality data to estimate that P.1 may be 1.7-to 2.4-fold more transmissible and that previous (non-P.1) infection provides 54 to 79% of the protection against infection with P.
Journal ArticleDOI
Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England.
Erik M. Volz,Swapnil Mishra,Meera Chand,Jeffrey C. Barrett,Robert Johnson,Lily Geidelberg,Wes Hinsley,Daniel J. Laydon,Gavin Dabrera,Áine O'Toole,Roberto Amato,Manon Ragonnet-Cronin,Ian Harrison,Ben Jackson,Cristina V. Ariani,Olivia Boyd,Nicholas J. Loman,Nicholas J. Loman,John T. McCrone,Sónia Gonçalves,David Jorgensen,Richard M. Myers,Verity Hill,David K. Jackson,Katy A. M. Gaythorpe,Natalie Groves,John Sillitoe,Dominic P. Kwiatkowski,Seth Flaxman,Oliver Ratmann,Samir Bhatt,Samir Bhatt,Susan Hopkins,Axel Gandy,Andrew Rambaut,Neil M. Ferguson +35 more
TL;DR: In this paper, the authors show that changes in VOC frequency inferred from genetic data correspond closely to changes inferred by S gene target failures (SGTF) in community-based diagnostic PCR testing.
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Evaluating the Effects of SARS-CoV-2 Spike Mutation D614G on Transmissibility and Pathogenicity.
Erik M. Volz,Verity Hill,John T. McCrone,Anna Price,David Jorgensen,Áine O'Toole,Joel Southgate,Robert Johnson,Ben Jackson,Fabrícia F. Nascimento,Sara Rey,Samuel M. Nicholls,Rachel M. Colquhoun,Ana da Silva Filipe,James G Shepherd,David J Pascall,Rajiv Shah,Natasha Jesudason,Kathy Li,Ruth F. Jarrett,Nicole Pacchiarini,Matthew J. Bull,Lily Geidelberg,Igor Siveroni,Ian Goodfellow,Nicholas J. Loman,Oliver G. Pybus,David Robertson,E. Thomson,Andrew Rambaut,Thomas R. Connor +30 more
TL;DR: Investigation of the hypothesis for positive selection of Spike D614G in the United Kingdom using more than 25,000 whole genome SARS-CoV-2 sequences indicates that 614G increases in frequency relative to 614D in a manner consistent with a selective advantage.
Journal ArticleDOI
Assignment of epidemiological lineages in an emerging pandemic using the pangolin tool.
Áine O'Toole,Emily Scher,Anthony Underwood,Ben Jackson,Verity Hill,John T. McCrone,Rachel M. Colquhoun,Christopher Ruis,Khalil Abudahab,Ben Taylor,Corin Yeats,Louis du Plessis,Daniel Maloney,Nathan C Medd,Stephen W Attwood,David M. Aanensen,Edward C. Holmes,Oliver G. Pybus,Andrew Rambaut +18 more
TL;DR: Pangolin this paper is a computational tool that has been developed to assign the most likely lineage to a given SARS-CoV-2 genome sequence according to the Pango dynamic lineage nomenclature scheme.