Explanipedia

Publisher Correction: SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway Open

Brian J. Willett, Joe Grove, Oscar A. MacLean, Craig Wilkie, Giuditta De Lorenzo , et al. · 2022

Emergence of immune escape at dominant SARS-CoV-2 killer T cell epitope Open

Garry Dolton, Cristina Rius, Md Samiul Hasan, Aaron Wall, Barbara Szomolay , et al. · 2022

SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway Open

Brian J. Willett, Joe Grove, Oscar A. MacLean, Craig Wilkie, Giuditta De Lorenzo , et al. · 2022

The origins and molecular evolution of SARS-CoV-2 lineage B.1.1.7 in the UK Open

Verity Hill, Louis du Plessis, Thomas P. Peacock, Dinesh Aggarwal, Rachel Colquhoun , et al. · 2022

The first SARS-CoV-2 variant of concern (VOC) to be designated was lineage B.1.1.7, later labelled by the World Health Organization as Alpha. Originating in early autumn but discovered in December 2020, it spread rapidly and caused large w…

The origins and molecular evolution of SARS-CoV-2 lineage B.1.1.7 in the UK Open

Verity Hill, Louis du Plessis, Thomas P. Peacock, Dinesh Aggarwal, Rachel Colquhoun , et al. · 2022

The first SARS-CoV-2 variant of concern (VOC) to be designated was lineage B.1.1.7, later labelled by the World Health Organisation (WHO) as Alpha. Originating in early Autumn but discovered in December 2020, it spread rapidly and caused l…

Genomic assessment of quarantine measures to prevent SARS-CoV-2 importation and transmission Open

Dinesh Aggarwal, Andrew J. Page, Ulf Schaefer, George M. Savva, Richard Myers , et al. · 2022

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 study Open

Katherine A. Twohig, Tommy Nyberg, Asad Zaidi, Simon Thelwall, Mary Sinnathamby , et al. · 2021

CLIMB-COVID: continuous integration supporting decentralised sequencing for SARS-CoV-2 genomic surveillance Open

Samuel M. Nicholls, Radoslaw Poplawski, Matthew Bull, Anthony Underwood, Michael Chapman , et al. · 2021

Emergence of immune escape at dominant SARS-CoV-2 killer T-cell epitope Open

Garry Dolton, Cristina Rius, Md Samiul Hasan, Aaron Wall, Barbara Szomolay , et al. · 2021

The adaptive immune system protects against infection via selection of specific antigen receptors on B-cells and T-cells. We studied the prevalent CD8 ‘killer’ T-cell response mounted against SARS-CoV-2 Spike 269-277 epitope YLQPRTFLL via …

Changes in symptomatology, reinfection, and transmissibility associated with the SARS-CoV-2 variant B.1.1.7: an ecological study Open

Mark S. Graham, Carole H. Sudre, Anna May, Michela Antonelli, Benjamin Murray , et al. · 2021

Localised community circulation of SARS-CoV-2 viruses with an increased accumulation of single nucleotide polymorphisms that adversely affect the sensitivity of real-time reverse transcription assays targeting Nucleocapsid protein Open

Catherine Moore, Louise Davies, Rhiannydd Rees, Laura Gifford, Heather Lewis , et al. · 2021

Summary Currently the primary method for confirming acute SARS-CoV-2 infection is through the use of molecular assays that target highly conserved regions within the viral genome. Many, if not most of the diagnostic targets currently in us…

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

Erik Volz, Verity Hill, John T. McCrone, Anna Price, David Jorgensen , et al. · 2020

Evaluating the effects of SARS-CoV-2 Spike mutation D614G on transmissibility and pathogenicity Open

Erik Volz, Verity Hill, John T. McCrone, Anna Price, David Jorgensen , et al. · 2020

Summary 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 investigate the hypothesis for positive selection of…

Influenza classification from short reads with VAPOR facilitates robust mapping pipelines and zoonotic strain detection for routine surveillance applications Open

Joel Southgate, Matthew Bull, Clare M. Brown, Joanne Watkins, Sally Corden , et al. · 2019

Motivation Influenza viruses represent a global public health burden due to annual epidemics and pandemic potential. Due to a rapidly evolving RNA genome, inter-species transmission, intra-host variation, and noise in short-read data, read…

Influenza Classification from Short Reads with VAPOR Facilitates Robust Mapping Pipelines and Zoonotic Strain Detection for Routine Surveillance Applications Open

Joel Southgate, Matthew Bull, Clare M. Brown, Joanne Watkins, Sally Corden , et al. · 2019

Background Influenza viruses are associated with a significant global public health burden. The segmented RNA genome of influenza changes continually due to mutation, and the accumulation of these changes within the antigenic recognition s…

CLIMB (the Cloud Infrastructure for Microbial Bioinformatics): an online resource for the medical microbiology community Open

Thomas R. Connor, Nicholas J. Loman, Simon Thompson, Andy Smith, Joel Southgate , et al. · 2016

The increasing availability and decreasing cost of high-throughput sequencing has transformed academic medical microbiology, delivering an explosion in available genomes while also driving advances in bioinformatics. However, many microbio…

CLIMB (the Cloud Infrastructure for Microbial Bioinformatics): an online resource for the medical microbiology community Open

Thomas R. Connor, Nicholas J. Loman, Simon Thompson, Andy Smith, Joel Southgate , et al. · 2016

The increasing availability and decreasing cost of high-throughput sequencing has transformed academic medical microbiology, delivering an explosion in available genomes while also driving advances in bioinformatics. However, many microbio…

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