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Phylogenetic and phylodynamic approaches to understanding and combating the early SARS-CoV-2 pandemic
Determining the transmissibility, prevalence and patterns of movement of severe acute
respiratory syndrome coronavirus 2 (SARS-CoV-2) infections is central to our understanding …
respiratory syndrome coronavirus 2 (SARS-CoV-2) infections is central to our understanding …
A pseudovirus system enables deep mutational scanning of the full SARS-CoV-2 spike
A major challenge in understanding SARS-CoV-2 evolution is interpreting the antigenic and
functional effects of emerging mutations in the viral spike protein. Here, we describe a deep …
functional effects of emerging mutations in the viral spike protein. Here, we describe a deep …
Pandemic-scale phylogenomics reveals the SARS-CoV-2 recombination landscape
Accurate and timely detection of recombinant lineages is crucial for interpreting genetic
variation, reconstructing epidemic spread, identifying selection and variants of interest, and …
variation, reconstructing epidemic spread, identifying selection and variants of interest, and …
Ultrafast Sample placement on Existing tRees (UShER) enables real-time phylogenetics for the SARS-CoV-2 pandemic
As the SARS-CoV-2 virus spreads through human populations, the unprecedented
accumulation of viral genome sequences is ushering in a new era of 'genomic contact …
accumulation of viral genome sequences is ushering in a new era of 'genomic contact …
Fitness effects of mutations to SARS-CoV-2 proteins
Abstract Knowledge of the fitness effects of mutations to SARS-CoV-2 can inform
assessment of new variants, design of therapeutics resistant to escape, and understanding …
assessment of new variants, design of therapeutics resistant to escape, and understanding …
Phylogenetic analysis of SARS-CoV-2 data is difficult
Numerous studies covering some aspects of SARS-CoV-2 data analyses are being
published on a daily basis, including a regularly updated phylogeny on nextstrain. org. Here …
published on a daily basis, including a regularly updated phylogeny on nextstrain. org. Here …
A biochemical perspective of the nonstructural proteins (NSPs) and the spike protein of SARS CoV-2
The global pandemic that shut down the world in 2020 was caused by the virus, SARS CoV-
2. The chemistry of the various nonstructural proteins (NSP3, NSP5, NSP12, NSP13 …
2. The chemistry of the various nonstructural proteins (NSP3, NSP5, NSP12, NSP13 …
Co-infection with SARS-CoV-2 Omicron and Delta variants revealed by genomic surveillance
Co-infections with different variants of SARS-CoV-2 are a key precursor to recombination
events that are likely to drive SARS-CoV-2 evolution. Rapid identification of such co …
events that are likely to drive SARS-CoV-2 evolution. Rapid identification of such co …
Want to track pandemic variants faster? Fix the bioinformatics bottleneck
Want to track pandemic variants faster? Fix the bioinformatics bottleneck Skip to main content
Thank you for visiting nature.com. You are using a browser version with limited support for CSS …
Thank you for visiting nature.com. You are using a browser version with limited support for CSS …
Evolution of the SARS-CoV-2 mutational spectrum
SARS-CoV-2 evolves rapidly in part because of its high mutation rate. Here, we examine
whether this mutational process itself has changed during viral evolution. To do this, we …
whether this mutational process itself has changed during viral evolution. To do this, we …