Computational strategies to combat COVID-19: useful tools to accelerate SARS-CoV-2 and coronavirus research
Abstract SARS-CoV-2 (severe acute respiratory syndrome coronavirus 2) is a novel virus of
the family Coronaviridae. The virus causes the infectious disease COVID-19. The biology of …
the family Coronaviridae. The virus causes the infectious disease COVID-19. The biology of …
Divergent SARS-CoV-2 variant emerges in white-tailed deer with deer-to-human transmission
Wildlife reservoirs of broad-host-range viruses have the potential to enable evolution of viral
variants that can emerge to infect humans. In North America, there is phylogenomic …
variants that can emerge to infect humans. In North America, there is phylogenomic …
A survey on the algorithm and development of multiple sequence alignment
Multiple sequence alignment (MSA) is an essential cornerstone in bioinformatics, which can
reveal the potential information in biological sequences, such as function, evolution and …
reveal the potential information in biological sequences, such as function, evolution and …
RNA genome conservation and secondary structure in SARS-CoV-2 and SARS-related viruses: a first look
R Rangan, IN Zheludev, RJ Hagey, EA Pham… - Rna, 2020 - rnajournal.cshlp.org
As the COVID-19 outbreak spreads, there is a growing need for a compilation of conserved
RNA genome regions in the SARS-CoV-2 virus along with their structural propensities to …
RNA genome regions in the SARS-CoV-2 virus along with their structural propensities to …
Highly divergent white-tailed deer SARS-CoV-2 with potential deer-to-human transmission
Wildlife reservoirs of SARS-CoV-2 can lead to viral adaptation and spillback from wildlife to
humans. In North America, there is evidence of spillover of SARS-CoV-2 from humans to …
humans. In North America, there is evidence of spillover of SARS-CoV-2 from humans to …
ViralMSA: Massively scalable reference-guided multiple sequence alignment of viral genomes
N Moshiri - Bioinformatics, 2021 - academic.oup.com
Motivation In molecular epidemiology, the identification of clusters of transmissions typically
requires the alignment of viral genomic sequence data. However, existing methods of …
requires the alignment of viral genomic sequence data. However, existing methods of …
A computational method for the identification of Dengue, Zika and Chikungunya virus species and genotypes
In recent years, an increasing number of outbreaks of Dengue, Chikungunya and Zika
viruses have been reported in Asia and the Americas. Monitoring virus genotype diversity is …
viruses have been reported in Asia and the Americas. Monitoring virus genotype diversity is …
SARS-CoV-2 variant evolution in the United States: High accumulation of viral mutations over time likely through serial Founder Events and mutational bursts
RN Tasakis, G Samaras, A Jamison, M Lee, A Paulus… - PLoS …, 2021 - journals.plos.org
Since the first case of COVID-19 in December 2019 in Wuhan, China, SARS-CoV-2 has
spread worldwide and within a year and a half has caused 3.56 million deaths globally. With …
spread worldwide and within a year and a half has caused 3.56 million deaths globally. With …
Mapping the dynamics of contemporary PRRSV-2 evolution and its emergence and spreading hotspots in the US using phylogeography
The repeated emergence of new genetic variants of PRRSV-2, the virus that causes porcine
reproductive and respiratory syndrome (PRRS), reflects its rapid evolution and the failure of …
reproductive and respiratory syndrome (PRRS), reflects its rapid evolution and the failure of …
Atypical divergence of SARS-CoV-2 Orf8 from Orf7a within the coronavirus lineage suggests potential stealthy viral strategies in immune evasion
Orf8, one of the most puzzling genes in the SARS lineage of coronaviruses, marks a unique
and striking difference in genome organization between SARS-CoV-2 and SARS-CoV-1 …
and striking difference in genome organization between SARS-CoV-2 and SARS-CoV-1 …