TY - JOUR
AU - O'Toole, Áine Niamh
AU - Scher, Emily
AU - Underwood, Anthony
AU - Jackson, Ben
AU - Hill, Verity
AU - McCrone, John T.
AU - Colquhoun, Rachel M.
AU - Ruis, Christopher
AU - Abu-Dahab, Khalil
AU - Taylor, Ben
AU - Yeats, Corin
AU - du Plessis, Louis
AU - Maloney, Daniel
AU - Medd, Nathan
AU - Attwood, Stephen W.
AU - Aanensen, David M.
AU - Holmes, Edward C.
AU - Pybus, Oliver G.
AU - Rambaut, Andrew
PY - 2021
DA - July
TI - Assignment of epidemiological lineages in an emerging pandemic using the pangolin tool
JO - Virus Evolution
VL - 7
IS - 2
DO - https://doi.org/10.1093/ve/veab064
AB - The response of the global virus genomics community to the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) pandemic has been unprecedented, with significant advances made towards the ‘real-time’ generation and sharing of SARS-CoV-2 genomic data. The rapid growth in virus genome data production has necessitated the development of new analytical methods that can deal with orders of magnitude of more genomes than previously available. Here, we present and describe Phylogenetic Assignment of Named Global Outbreak Lineages (pangolin), 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. To date, nearly two million virus genomes have been submitted to the web-application implementation of pangolin, which has facilitated the SARS-CoV-2 genomic epidemiology and provided researchers with access to actionable information about the pandemic’s transmission lineages.
PB - Oxford University Press
UR - https://www.research.ed.ac.uk/en/publications/8d983a2a-1514-4dbd-a030-f0e9b2afad9e
KW - Coronavirus (COVID-19)
ER