Genomic diversity and molecular dynamics interaction on mutational variances among RB domains of SARS-CoV-2 interplay drug inactivationSARS-CoV-2 상호 작용 약물 비활성화의 RB 도메인 간의 돌연변이 변이에 대한 게놈 다양성 및 분자 역학 상호 작용Article Published on 2022-01-012022-09-11 Journal: Infection, genetics and evolution : journal of mol [Category] SARS, 변종, 유전자 메커니즘, 치료제, [키워드] America Analysis Asia binding affinity conformational change country docking domain drug and vaccine development effective Efficiency Europe facilitate Genome genomes genomic genomic sequence inactivation Interaction investigated lowest molecular molecular docking molecular dynamics Molecular dynamics simulation molecular feature molecular features Mutation mutational analysis mutations nucleotide nucleotide substitution occurred performed Phylogenomic diversity Positive selection predicted prevalent Protein RBD RBD domain reference sequence Region Remdesivir Research retrieved S protein SARS-CoV-2 SARS-CoV-2 genomes Scientific community similarity spike the RBD the SARS-CoV-2 the SARS-CoV-2 genome USA Vaccine development [DOI] 10.1016/j.meegid.2021.105128 PMC 바로가기 [Article Type] Article
Analysis of the ARTIC Version 3 and Version 4 SARS-CoV-2 Primers and Their Impact on the Detection of the G142D Amino Acid Substitution in the Spike ProteinARTIC 버전 3 및 버전 4 SARS-CoV-2 프라이머의 분석 및 스파이크 단백질의 G142D 아미노산 치환 검출에 미치는 영향Article Published on 2021-12-222022-09-11 Journal: Microbiology Spectrum [Category] SARS, 변종, 진단, 치료기술, [키워드] absence acid addition addressed adoption Amino acid amino acid substitution amplification amplified amplify amplifying ARTIC ARTIC Network clinical sample clinical samples COVID-19 Critical D950N delta variant detection downstream downstream analyses G142D Genome Genome sequences Genome sequencing genomes Illumina Impact improvement initial iteration Laboratory Metadata mutations NovaSeq 6000 observé PCR primer sequence PCR primer sequences primer primer set primer sets Primers primers. provide recommendation reference genome Region released resource SARS-CoV-2 SARS-CoV-2 genomes sequence sequenced Sequencing sequencing depth sequencing read SNP Spike protein Spread subsequent Substitution the SARS-CoV-2 the Spike the spike protein V3 primer set variant Variation Version widespread [DOI] 10.1128/Spectrum.01803-21 PMC 바로가기 [Article Type] Article
Geographical Landscape and Transmission Dynamics of SARS-CoV-2 Variants Across India: A Longitudinal PerspectiveGenetics Published on 2021-12-172022-10-31 Journal: Frontiers in Genetics [Category] COVID-19, [키워드] addition age Analysis Auspice B.1.1.7 lineage B.1.617 B.1.617.1 B.1.617.2 clade clades country COVID-19 dataset distribution Dynamics Evidence Evolution Gender genomes genomic Genomic surveillance GISAID Gujarat healthcare help include India indicated Integrative analysis knowledge landscape Lineage lineages longitudinal Longitudinal data Nextstrain pandemic Perspective predominant prevalent strain public health real time Regional replaced Repository reveal SARS-CoV-2 sequencing data Spread spread to Substitution Surveillance the SARS-CoV-2 Transmission Transmission dynamics variants of concern variants of interest virus VoC VOCs West [DOI] 10.3389/fgene.2021.753648 PMC 바로가기 [Article Type] Genetics
An integrative bioinformatics analysis for identifying hub genes associated with infection of lung samples in patients infected with SARS-CoV-2SARS-CoV-2에 감염된 환자의 폐 샘플 감염과 관련된 허브 유전자 식별을 위한 통합 생물정보학 분석Research Published on 2021-12-172022-09-11 Journal: European Journal of Medical Research [Category] SARS, 유전자 메커니즘, [키워드] acute respiratory syndrome acute respiratory syndrome coronavirus acute respiratory syndrome coronavirus 2 Analysis approach approaches Bioinformatics analysis biological processe biological processes BPS coronavirus coronavirus disease Coronavirus disease 2019 COVID-19 data set DDX58 DEGs differentially expressed gene Differentially expressed genes EGR1 function functions Gene ontology Genes genomes GO analysis GSE147507 Guidance Health Organization hub genes human body identify IFIH1 IFITM1 immune responses infected with SARS-CoV-2 Infection International Intersection ISG15 KEGG Kyoto lung OASL online tool pathophysiological mechanism Patient performed PHEIC PPI PPI network processed programming Protein–protein interaction Protein–protein interactions network public health emergency respiratory Result SAMD9 SAMD9L SARS-CoV-2 SARS-COV-2 infection screened selected severe acute respiratory syndrome Coronavirus severity STRING supplementary material TNFSF10 turn Viral viral infection WHO World Health Organization XAF1 [DOI] 10.1186/s40001-021-00609-4 PMC 바로가기 [Article Type] Research
LinearTurboFold: Linear-time global prediction of conserved structures for RNA homologs with applications to SARS-CoV-2408 Published on 2021-12-092022-10-29 Journal: Proceedings of the National Academy of Sciences of [Category] COVID-19, SARS, [키워드] acute respiratory syndrome Algorithm Antisense oligonucleotides conserved conserved structures coronavirus Coronaviruses COVID-19 Critical diagnostic diagnostics disease drugs Effectiveness effort experimental work faster full-length full-length genome functions Genome genomes guide RNAs help homolog homologous folding homologs identify in silico Interaction knowledge Local magnitude Pandemics predict Primers reduce Region RNA RNA secondary structure RNA structure RNA virus RNA viruses RT-PCR SARS-CoV-2 sequence Significance siRNAs structural alignment Structural analysis Structure structures target therapeutic UTRs Vaccine variant variants viral genomes whole genome [DOI] 10.1073/pnas.2116269118 PMC 바로가기 [Article Type] 408
Emergence of novel combinations of SARS-CoV-2 spike receptor binding domain variants in Senegal세네갈에서 SARS-CoV-2 스파이크 수용체 결합 도메인 변이체의 새로운 조합의 출현Article Published on 2021-12-082022-09-10 Journal: Scientific Reports [Category] SARS, 변종, [키워드] acute respiratory syndrome acute respiratory syndrome coronavirus acute respiratory syndrome coronavirus 2 Combination coronavirus Course Diseases E484K emergence escape mutation Evidence evidence of Evolution genetics genomes Health care L452R Lineage lineages Local MONITOR Mutation mutations N501Y new SARS-CoV-2 next generation sequencing pandemic parallel evolution Receptor binding domain respiratory S477N SARS-CoV-2 SARS-CoV-2 spike SARS-CoV-2 spike mutations second wave sequence sequenced Sequencing severe acute respiratory syndrome Coronavirus specimen specimens spike gene Treatment variant whole genome [DOI] 10.1038/s41598-021-02874-z PMC 바로가기 [Article Type] Article
Highly accurate whole-genome imputation of SARS-CoV-2 from partial or low-quality sequencesTechnical Note Published on 2021-12-022022-10-31 Journal: GigaScience [Category] COVID-19, SARS, [키워드] Amplicon cause complex condition Genome genomes IMPROVE imputation in viral Lineage lineages Linkage disequilibrium pathogen Phylogeny Precision predict producing reference panel Result SARS-CoV-2 SARS-CoV-2 genome SARS-CoV-2 pandemic SARS-CoV-2 sequencing sequence sequenced sequencing data Surveillance utility virus was tested whole-genome imputation whole-genome sequencing [DOI] 10.1093/gigascience/giab078 PMC 바로가기 [Article Type] Technical Note
Analysis of 329,942 SARS-CoV-2 records retrieved from GISAID databaseGISAID 데이터베이스에서 검색된 329,942개의 SARS-CoV-2 기록 분석Article Published on 2021-12-012022-09-11 Journal: Computers in biology and medicine [Category] SARS, 변종, 치료기술, [키워드] addressed age Analysis B.1.1.7 B.1.1.7 variant bioinformatics caused Cluster Clustering Completeness conserved coronavirus correlation coefficient Correlation coefficient matrix Deletion deletions Denmark Gender genetic variability Genome genomes GISAID GISAID database greater Health Science hidden less machine machine learning material Mutation nucleotide nucleotides ORF1ab ORF6 pandemic Patient performed proportion Research retrieved SARS-CoV-2 SARS-CoV-2 virus sequence Sequence alignment sequences Sequencing SNP suggested variant was performed were excluded worldwide pandemic [DOI] 10.1016/j.compbiomed.2021.104981 PMC 바로가기 [Article Type] Article
SARS-CoV-2 introduction and lineage dynamics across three epidemic peaks in Southern Brazil: massive spread of P.1브라질 남부의 세 전염병 정점에 걸친 SARS-CoV-2 도입 및 계보 역학: P.1의 대규모 확산Article Published on 2021-12-012022-09-11 Journal: Infection, genetics and evolution : journal of mol [Category] SARS, 변종, [키워드] acute respiratory syndrome acute respiratory syndrome coronavirus acute respiratory syndrome coronavirus 2 Analysis analyzed B.1 B.1.1 B.1.1.28 B.1.1.33 Brazil circulating Combination contributing to coordination coronavirus COVID-19 dataset Deletion deletions disease disease control dispersion Epidemic epidemic peak Epidemic peaks genetic diversity genomes genomic genomic diversity Genomic surveillance GISAID Health authority highlighting International Lineage lineages Mutation P.1 P.1 lineage P.2 phylogenetic inference Regional reported Rio Grande SARS-CoV-2 SARS-CoV-2 datasets SARS-CoV-2 genome SARS-CoV-2 genomes SARS-CoV-2 lineage sequence sequenced severe acute respiratory syndrome Coronavirus severe acute respiratory syndrome coronavirus 2 spike mutation Spread Transmission viral dynamics [DOI] 10.1016/j.meegid.2021.105144 PMC 바로가기 [Article Type] Article
Phylogenomics and population genomics of SARS-CoV-2 in Mexico during the pre-vaccination stage reveals variants of interest B.1.1.28.4 and B.1.1.222 or B.1.1.519 and the nucleocapsid mutation S194L associated with symptoms백신 접종 전 단계에서 멕시코에서 SARS-CoV-2의 계통유전체학 및 인구유전체학은 관심 변이 B.1.1.28.4 및 B.1.1.222 또는 B.1.1.519 및 증상과 관련된 뉴클레오캡시드 돌연변이 S194L을 나타냅니다Research Articles Published on 2021-11-302022-09-10 Journal: Microbial Genomics [Category] MERS, SARS, 변종, 치료기술, 치료법, [키워드] adaptive addition allelic Analysis Asymptomatic Asymptomatic carriers baseline carrier clades Clinical data complementary COVID-19 pandemic disease dual E484K Effect Evolution Evolution of SARS-CoV-2 fixed Follow-up Frequency Genetic Genome genomes help highlight Host lack Mexico mitigate Mutation N-terminal domain nucleocapsid nucleocapsid protein Nucleocapsid proteins nucleotide pandemic phenotypic Phylogenomics population genomics pre-vaccination Prevalence Protein quantitative PCR raising receptor-binding motif Region reveal SARS-CoV-2 SARS-CoV-2 virus Single nucleotide variant single nucleotide variants spike and nucleocapsid proteins spike glycoprotein Spike protein Symptom symptomatic and asymptomatic Symptomatic patients T478K the SARS-CoV-2 virus understanding vaccination variant variants variants of interest virus [DOI] 10.1099/mgen.0.000684 PMC 바로가기 [Article Type] Research Articles