Dynamically evolving novel overlapping gene as a factor in the SARS-CoV-2 pandemicResearch Article Published on 2020-10-012022-10-31 Journal: eLife [Category] COVID-19, MERS, SARS, [키워드] accessory gene Analysis Antibody Response bat-CoVs Confusion coronavirus COVID-19 patients elicit Evidence genome annotation genomes Guangxi highlight human host identify natural selection novel virus ORF3b ORF3d overlapping overlapping genes pandemic Pandemics pangolin-CoV protein sequence SARS-CoV-2 SARS-CoV-2 consensus sequences sequenced shown the SARS-CoV-2 translation understanding virus [DOI] 10.7554/eLife.59633 PMC 바로가기 [Article Type] Research Article
Genopo : a nanopore sequencing analysis toolkit for portable Android devicesArticle Published on 2020-09-292022-10-31 Journal: Communications Biology [Category] COVID-19, SARS, [키워드] Analysis bioinformatics can be used Community Complete computation computational analysis Computational platforms and environments coronavirus SARS-CoV-2 determine DNA and RNA DNA methylation DNA sequencing flexible Genome genome sequence genomes Human genome less Nanopore nine patient isolate performed resource sequenced Sequencing Sequencing analysis sequencing data Tablet toolkit utility [DOI] 10.1038/s42003-020-01270-z PMC 바로가기 [Article Type] Article
A SARS-CoV-2 vaccine candidate would likely match all currently circulating variants530 Published on 2020-09-222022-10-29 Journal: Proceedings of the National Academy of Sciences of [Category] COVID-19, MERS, SARS, [키워드] ACE2 receptor acute respiratory syndrome adaptive affecting analyses binding bioinformatics circulating circulating variant comparable Consensus coronavirus COVID-19 COVID-19 pandemic D614G mutation effective event Evidence Evolution explain Genes genetics genomes homogeneous immunogenic in viral lineages magnitude median mutate Mutation mutations Neutral neutralizing antibody nucleotide substitution Phylogenetic polymorphism Population Protein question raise reference sequence Safe SARS-CoV-2 SARS-CoV-2 genomes SARS-CoV-2 sequence SARS-CoV-2 sequences SARS-CoV-2 vaccine sequence Seven Significance single vaccine spike Spread the Spike transmitted urgency Vaccine vaccine candidate vaccine candidates variant virus while Wuhan-Hu-1 [DOI] 10.1073/pnas.2008281117 PMC 바로가기 [Article Type] 530
Extreme Genomic CpG Deficiency in SARS-CoV-2 and Evasion of Host Antiviral DefenseDiscoveries Published on 2020-09-142022-10-29 Journal: Molecular Biology and Evolution [Category] COVID-19, SARS, [키워드] activity Alter Antiviral bats Betacoronavirus bind canine canine intestine cellular comparable coronavirus COVID-19 CpG Defense deficiency degrade dinucleotide events exhibit expected expression extreme Genome genomes Host host tissue hosts identify in viral Increasing infecting mammalian MERS Protein recruit RNA genome RNA modification RNA virus SARS-CoV-2 selective tissue tissue-specific expression variety viral evolution viral genome viral replication Viral RNA viral RNA genome virulence virulent virus ZAP zinc finger antiviral protein [DOI] 10.1093/molbev/msaa094 PMC 바로가기 [Article Type] Discoveries
Characterization of accessory genes in coronavirus genomesResearch Published on 2020-08-272022-10-28 Journal: Virology Journal [Category] COVID-19, [키워드] accessory gene Accessory genes accessory protein accessory proteins Analysis annotations applied bioinformatics caused characterization characterized Circular code motifs classical coding contribute coronavirus coronavirus genome CoV CoV genome COVID-19 Evidence Frame functional Genome genomes help hosts Infection less motif novel Open reading frame ORF ORF prediction ORF10 ORF1a ORF1ab ORF3b ORFs overlapping Pathogenesis polyprotein predict predicted Protein provide Result SARS coronaviruses SARS-CoV SARS-CoV-2 SARS-like virus sequence structural protein targets the SARS-CoV-2 the SARS-CoV-2 virus the Spike viral genes virus genomes virus replication [DOI] 10.1186/s12985-020-01402-1 PMC 바로가기 [Article Type] Research
Dataset of mutational analysis, miRNAs targeting SARS-CoV-2 genes and host gene expression in SARS-CoV and SARS-CoV-2 infectionsGenetics, Genomics and Molecular Biology Published on 2020-08-212022-10-31 Journal: Sensors (Basel, Switzerland) [Category] COVID-19, [키워드] Analysis anti-viral miRNA anti-viral role Antiviral antiviral miRNAs changes in collected conserved COVID-19 COVID-19 infections dataset Gene Expression Genome genome sequence genomes GISAID database host gene expression host miRNA infections mechanism MERS Metadata miRanda miRNA mutated virus Mutation predicted Respiratory disease SARS-CoV SARS-CoV-2 SARS-CoV-2 gene SARS-CoV-2 genomes SARS-COV-2 infection submitted virus [DOI] 10.1016/j.dib.2020.106207 PMC 바로가기 [Article Type] Genetics, Genomics and Molecular Biology
Time-series analyses of directional sequence changes in SARS-CoV-2 genomes and an efficient search method for candidates for advantageous mutations for growth in human cellsArticle Published on 2020-08-062022-10-31 Journal: Gene: X [Category] COVID-19, MERS, SARS, [키워드] Analysis candidate changes in conducted COVID-19 directional Ebolavirus Frequency Genome genomes growth human cell human cells in viral Mutation Occurrence oligonucleotide oligonucleotides PCR primer Phylogenetic tree SARS-CoV-2 SARS-CoV-2 genome SARS-CoV-2 genomes sequence Seven Therapeutic oligonucleotide thought viral adaptation Zaire ebolavirus zoonotic virus [DOI] 10.1016/j.gene.2020.100038 PMC 바로가기 [Article Type] Article
Genome Sequences of Six SARS-CoV-2 Strains Isolated in Morocco, Obtained Using Oxford Nanopore MinION TechnologyGenome Sequences Published on 2020-08-062022-10-29 Journal: Microbiology Resource Announcements [Category] COVID-19, [키워드] acute respiratory syndrome Analysis coronavirus COVID-19 pandemic D614G mutation draft Genome genome sequence genomes isolate Isolated Morocco Nasopharyngeal swab Oxford Nanopore MinION patients with COVID-19 responsible SARS-CoV-2 sequence strain Strains technology Wuhan, China [DOI] 10.1128/MRA.00767-20 PMC 바로가기 [Article Type] Genome Sequences
Use of Whole Genome Sequencing Data for a First in Silico Specificity Evaluation of the RT-qPCR Assays Used for SARS-CoV-2 DetectionArticle Published on 2020-08-042022-10-29 Journal: International Journal of Molecular Sciences [Category] COVID-19, MERS, [키워드] bioinformatics bioinformatics tool biological sample can be used CDC center China circulating SARS-CoV-2 variants coding conserved Control COVID-19 COVID-19 case detection Diagnosis different time points downloaded Europe evaluate Evolution exhibit Genetic genomes human reference genome in silico in silico specificity evaluation initial loci Mismatches pandemic primer primers and probes probe Protein respiratory viral RT-qPCR RT-qPCR test SARS-CoV-2 SARS-CoV-2 detection SARS-CoV-2 genome SARS-CoV-2 genomes SARS-CoV-2 RNA sequenced specificity WGS data whole genome [DOI] 10.3390/ijms21155585 PMC 바로가기 [Article Type] Article
CoronaVR: A Computational Resource and Analysis of Epitopes and Therapeutics for Severe Acute Respiratory Syndrome Coronavirus-2Microbiology Published on 2020-07-312022-10-31 Journal: Frontiers in Microbiology [Category] COVID-19, [키워드] 2019-nCoV absence accelerate approach assist B-cell can be used Candidates causative pathogen CD4 CD8 CDC characterized China Chinese circumvent codon usage components concern Coronaviruses COVID-19 COVID-19 patient cross-protective CTL diagnostic disease effective effort Emergency epitope Epitope-based vaccine Epitopes Genome genome browser genomes global effort global pandemic glycosylation help identify initial Meta-analysis MHC miRNA miRNAs Novel coronavirus outbreak performed PHEIC Phylogenetic analysis primer Primers provided Public regimens Research researcher resource respiratory SARS-CoV SARS-CoV-2 selected sgRNAs siRNA siRNAs source of infection Spread Structural analysis T-cell tested therapeutic therapeutic interventions Therapeutics treat Vaccine virus WHO World Health Organization Wuhan [DOI] 10.3389/fmicb.2020.01858 PMC 바로가기 [Article Type] Microbiology