[HTML][HTML] Hospital admission and emergency care attendance risk for SARS-CoV-2 delta (B. 1.617. 2) compared with alpha (B. 1.1. 7) variants of concern: a cohort …
…, A Underwood, C Yeats, K Abudahab… - The Lancet Infectious …, 2022 - thelancet.com
Background The SARS-CoV-2 delta (B.1.617.2) variant was first detected in England in March,
2021. It has since rapidly become the predominant lineage, owing to high transmissibility. …
2021. It has since rapidly become the predominant lineage, owing to high transmissibility. …
[PDF][PDF] Evaluating the effects of SARS-CoV-2 spike mutation D614G on transmissibility and pathogenicity
…, AP Underwood, CA Yeats, K Abudahab… - Cell, 2021 - cell.com
Global dispersal and increasing frequency of the SARS-CoV-2 spike protein variant D614G
are suggestive of a selective advantage but may also be due to a random founder effect. We …
are suggestive of a selective advantage but may also be due to a random founder effect. We …
[HTML][HTML] Changes in symptomatology, reinfection, and transmissibility associated with the SARS-CoV-2 variant B. 1.1. 7: an ecological study
…, AP Underwood, CA Yeats, K Abudahab… - The Lancet Public …, 2021 - thelancet.com
Background The SARS-CoV-2 variant B.1.1.7 was first identified in December, 2020, in
England. We aimed to investigate whether increases in the proportion of infections with this …
England. We aimed to investigate whether increases in the proportion of infections with this …
Epidemic of carbapenem-resistant Klebsiella pneumoniae in Europe is driven by nosocomial spread
… We analysed the genome sequences and epidemiological data of >1,700 K. pneumoniae
… resistance determinants suggests that the propensity of K. pneumoniae to spread in hospital …
… resistance determinants suggests that the propensity of K. pneumoniae to spread in hospital …
Microreact: visualizing and sharing data for genomic epidemiology and phylogeography
S Argimón, K Abudahab, RJE Goater… - Microbial …, 2016 - microbiologyresearch.org
Visualization is frequently used to aid our interpretation of complex datasets. Within microbial
genomics, visualizing the relationships between multiple genomes as a tree provides a …
genomics, visualizing the relationships between multiple genomes as a tree provides a …
Phandango: an interactive viewer for bacterial population genomics
Fully exploiting the wealth of data in current bacterial population genomics datasets requires
synthesizing and integrating different types of analysis across millions of base pairs in …
synthesizing and integrating different types of analysis across millions of base pairs in …
[HTML][HTML] Public health surveillance of multidrug-resistant clones of Neisseria gonorrhoeae in Europe: a genomic survey
…, S Jacobsson, R Goater, K Abudahab… - The Lancet Infectious …, 2018 - thelancet.com
Background Traditional methods for molecular epidemiology of Neisseria gonorrhoeae are
suboptimal. Whole-genome sequencing (WGS) offers ideal resolution to describe population …
suboptimal. Whole-genome sequencing (WGS) offers ideal resolution to describe population …
[HTML][HTML] Europe-wide expansion and eradication of multidrug-resistant Neisseria gonorrhoeae lineages: a genomic surveillance study
…, D Golparian, N Sajedi, CA Yeats, K Abudahab… - The Lancet …, 2022 - thelancet.com
Background Genomic surveillance using quality-assured whole-genome sequencing (WGS)
together with epidemiological and antimicrobial resistance (AMR) data is essential to …
together with epidemiological and antimicrobial resistance (AMR) data is essential to …
[PDF][PDF] The impact of viral mutations on recognition by SARS-CoV-2 specific T cells
We identify amino acid variants within dominant SARS-CoV-2 T cell epitopes by interrogating
global sequence data. Several variants within nucleocapsid and ORF3a epitopes have …
global sequence data. Several variants within nucleocapsid and ORF3a epitopes have …
[HTML][HTML] A community-driven resource for genomic epidemiology and antimicrobial resistance prediction of Neisseria gonorrhoeae at Pathogenwatch
…, B Taylor, RJ Goater, A Underwood, K Abudahab… - Genome medicine, 2021 - Springer
Background Antimicrobial-resistant (AMR) Neisseria gonorrhoeae is an urgent threat to
public health, as strains resistant to at least one of the two last-line antibiotics used in empiric …
public health, as strains resistant to at least one of the two last-line antibiotics used in empiric …